open-traits-network/open-traits-network.github.io

Open Traits Network Registry and Website

open-traits-network.github.io's Issues

review OTN dataset submissions 13 -30 Sept 2019

@rachaelgallagher @jmadin et al. I've added a use case for dataset registry review process
in our architecture document here: https://docs.google.com/document/d/1O-B4fJ-60URy_NODngD3j5NtrFfkzj94zFYDZsd_l3U/edit#bookmark=id.1e47on72nbqp . I am hoping we can use these recent submission as a way to practice the process, perhaps first manually, then start automating parts when needed. I expect this to be clunky at first, perhaps using a little script to generate dataset .md files. Curious to hear your ideas.

Related to #37 .

table extracted from https://docs.google.com/spreadsheets/d/e/2PACX-1vTGsH57fb-H1J-n3kCXrN_h6nCsZDd9TSXqXPxC0VEXZrzCpR0KjhoESJP_2JQHtU9OXRPtRx8e129Q/pub?output=csv :

Timestamp	datasetDOI_URL	contactName	contactEmail	license	traitList	higherGeography	decimalLatitude	decimalLongitude	taxon	eventDate	paperDOIcitation	description	taxaList	usefulClasses	dataStandard	standardizationScripts	datasetName	datasetID
9/13/2019 1:58:51	https://media.nature.com/original/nature-assets/ncomms/2017/170801/ncomms16047/extref/ncomms16047-s14.xlsx	Hervé Sauquet | Jürg Schönenberger	[email protected]	CC BY 4.0	Sex | Ovary_position | Number_of_perianth_parts | Fusion_of_perianth | Symmetry_of_perianth | Perianth_phyllotaxy | Number_of_perianth_whorls | Perianth_merism | Perianth_differentiation | Number_of_fertile_stamens | Filament | Anther_orientation | Anther_attachment | Anther_dehiscence | Androecium_structural_phyllotaxy | Number_of_androecium_structural_whorls | Androecium_structural_merism | Gynoecium_phyllotaxy | Number_of_structural_carpels | Fusion_of_ovaries | Number_of_ovules_per_functional_carpel	Global			Angiospermae		10.1038/ncomms16047	Dataset of angiosperm floral traits (mostly structural), extracted from the PROTEUS database and built for the eFLOWER project; for more information on PROTEUS and eFLOWER, see www.eflower.org	792 angiosperm species	literatureData			Proteus eFlower
--	--	--	--	--	--	--	--	--	--	--	--	--	--	--	--	--	--	--
9/17/2019 4:52:57	https://doi.org/10.6084/m9.figshare.1499292	Stephen Garnett	[email protected]	CC BY 4.0	Distribution | Morphology | Habitat | Food | Behaviour | Breeding | Mobility | Climate metrics	Australia			Aves		doi:10.1038/sdata.2015.61	Traits for all Australian birds		Adult	None	None
9/17/2019 5:04:48	https://coraltraits.org/	Joshua Madin	[email protected]	CC0	Biomechanical | Conservation | Contextual | Ecological | Geographical | Morphological | Phylogenetic | Physiological | Reproductive | Stoichiometric	Global			Cnidaria | Anthozoa		https://doi.org/10.1038/sdata.2016.17	Coral Traits Database	1548 coral species	68494 coral observations with 106462 trait entries of 158 traits for 1548 coral species	Observation and Measurement Ontology (OBOE)	https://github.com/jmadin/traits	Coral Traits Database
9/17/2019 5:21:45	https://doi.org/10.1111/jvs.12646	Markus Bernhardt‐Römermann		CC-By	growth form | stem | shoot length | life form | life strategy | protonema | Hyalinhairpoint | dominants | distribution of gametangia | seta | capsules | size of spores | spore ornamentation | fruiting | vegetative dispersal traits	Germany			Embryophyta | Bryophyta		https://doi.org/10.1111/jvs.12646	A compilation of autecological information and morphological and regenerative trait data on different stages of the life cycle of bryophytes occurring in forest ecosystems. The database contains information for 35 traits and 721 Central European bryophyte species; in total more than 23,000 trait values	721 Central European bryophyte species	NA
9/17/2019 5:44:30	http://doi.org/10.5061/dryad.1cv08,	Joanne Bennett	[email protected]	CC-BY	Tmax | max_metric | error | error measure | Multiple measures | max_interval_after_LT0 | Tmax_2 | max_metric_2 error | error measure | max_interval_before_LT100 | max_pretreatment | max_ramp | lat_max | long_max elevation_max | REF_max | location_max | N | tmin | min_metric | Multiple measures_min | min_interval_after_LT0 | tmin_2 | min_metric_2 | min_interval_before_LT100 | min_pretreatment | ramp_min	Global			Chlorophyta | Plantae | Fungi | Animalia		doi: 10.1038/sdata.2018.22	Thermal tolerance metrics for 2,133 species of multicellular algae, plants, fungi, and animals in 43 classes, 203 orders and 525 families from marine, intertidal, freshwater, and terrestrial realms, extracted from published studies. Updates to the data and metadata will be curated through the iDiv data portal https://idata.idiv.de/	Chlorophyta | Plantae | Fungi | Animalia	NA
9/17/2019 5:49:20	https://doi.org/10.5061/dryad.f6t39kj	Shai Meiri	[email protected]	CC-BY	body size | ecological | thermal biology | geographic | phylogenetic | life history data	Global			Reptilia		https://doi.org/10.1111/geb.12773	Geographical, morphological, ecological, physiological and life history data for the 6,657 known species of lizards	Reptilia	NA
9/17/2019 5:58:57	http://www.esapubs.org/archive/ecol/E096/269/#data	Nathan Myhrvold		CC-BY	female_maturity_d | litter_or_clutch_size_n | litters_or_clutches_per_y | adult_body_mass_g | maximum_longevity_y | gestation_d | weaning_d | birth_or_hatching_weight_g | weaning_weight_g | egg_mass_g incubation_d | fledging_age_d | longevity_y | male_maturity_d | inter_litter_or_interbirth_interval_y | female_body_mass_g | male_body_mass_g | no_sex_body_mass_g egg_width_mm | egg_length_mm | fledging_mass_g | adult_svl_cm male_svl_cm female_svl_cm | birth_or_hatching_svl_cm | female_svl_at_maturity_cm | female_body_mass_at_maturity_g | no_sex_svl_cm | no_sex_maturity_d	Global			Amniotes | Aves | Reptilia | Mammalia		https://doi.org/10.1890/15-0846R.1	A normalized and consolidated database of up to 29 life-history parameters, containing at least one life-history parameter for 21 322 species of birds, mammals, and reptiles. In order to facilitate comparative analyses between amniote life‐history data, we created a database compiled from peer‐reviewed studies on individual species, macroecological studies of multiple species, existing life‐history databases, and other aggregated sources as well as published books and other compilations	Amniotes | Aves | Reptilia | Mammalia	NA		http://www.esapubs.org/archive/ecol/E096/269/#data
9/17/2019 6:04:17	https://ars.els-cdn.com/content/image/1-s2.0-S0048969711001124-mmc1.pdf	Ralf Schäfer		CC-BY	reproduction type | food source | respiration mode| physiological sensitivity to salinity	Australia			Invertebrate families		https://doi.org/10.1016/j.scitotenv.2011.01.053	We compiled a database on a priori selected traits for South-East Australian freshwater macroinvertebrate families	macroinvertebrates	NA
9/17/2019 6:16:04	https://doi.org/10.1111/acv.12350	Lucie Bland		CC-BY	Body size | Egg number | Chela size | Chela shape | Habitat breadth | Habitat type	Global			Arthropoda | Crustacea | Malacostraca		https://doi.org/10.1111/acv.12350	Data on intrinsic (biology and ecology) and extrinsic (environment and threats) factors for 450 crayfish species assessed on the IUCN Red List	Arthropoda | Crustacea | Malacostraca	IUCN listed taxa
9/17/2019 6:20:31	https://doi.pangaea.de/10.1594/PANGAEA.862968	Phillip Brun		CC-BY	body size | feeding mode | egg size | spawning strategy | respiration rate | myelination	Global | Marine			Animalia | Arthropoda | Copepoda		10.5194/essd-2016-30	A trait database for marine copepods. We compiled trait information on marine pelagic copepods, a major group of zooplankton, from the published literature and from experts, and organised the data into a structured database. We collected 9345 records for 14 functional traits.		Marine
9/17/2019 6:39:19	http://www.fishbase.org/search.php	Rainer Froese		CC-BY-NC	biology | trophic ecology | life history	Global			Animalia | Chordata | Vertebrata | Fin Fish		http://fishbase.org/search.php	FishBase is a global biodiversity information system on finfishes. It provides key facts on population dynamics for 200 major commercial species and has a wider range of data on all finfish species currently known in the world: taxonomy, biology, trophic ecology, life history, and uses	33,000 fish species	NA			FishBase
9/17/2019 6:45:58	http://www.fishtraits.info/search/key/	Emmanuel Frimpong		CC-BY	trophic ecology | body size | reproductive ecology | life history | habitat preferences | salinity and temperature tolerances	United States			Chordata | Vertebrata | Fish		https://doi.org/10.1577/1548-8446-34.10.487	We have compiled a database of > 100 traits for 809 (731 native and 78 nonnative) fish species found in freshwaters of the conterminous United States, including 37 native families and 145 native genera.The database, named Fish Traits, contains information on four major categories of traits: (1) trophic ecology; (2) body size, reproductive ecology, and life history; (3) habitat preferences; and (4) salinity and temperature tolerances	Chordata | Vertebrata | Fish	NA
9/17/2019 6:53:09	https://doi.org/10.6084/m9.figshare.c.3301274.v1	Kate Jones		CC-BY	life‐history | ecological | geographic | taxonomic	Global			Chordata | Mammalia		https://doi.org/10.1890/08-1494.1	Species‐level data set compiled for analysis of life history, ecology, and geography of all known extant and recently extinct mammals	Chordata | Mammalia	NA
9/17/2019 7:01:23	https://doi.org/10.5061/dryad.bp26v20	Søren Faurby		CC-0	Aerial | Diet.Invertebrate | Diet.Plant | Diet.Vertebrate | Freshwater | Island.Endemicity | Life.Habit.Method | Marine | Mass.Comparison | Mass.g | Terrestrial	Global			Chordata | Mammalia		10.1002/ecy.2443	PHYLACINE, The Phylogenetic Atlas of Mammal Macroecology. This taxonomically integrated platform contains phylogenies, range maps, trait data, and threat status for all 5,831 known mammal species that lived since the last interglacial (~130,000 years ago until present)	5,831 mammals	extinct taxa			PHYLACINE
9/17/2019 7:41:16	https://doi.org/10.5281/zenodo.2600338	Carmen Galán-Acedo		CC-BY	home range size | locomotion type | diel activity | trophic guild | body mass | habitat type | current conservation status | population trend | geographic realm	Global			Mamalia | Primates		https://doi.org/10.1038/s41597-019-0059-9	A database on some important ecological traits of the world’s primates (504 species), including home range size, locomotion type, diel activity, trophic guild, body mass, habitat type, current conservation status, population trend, and geographic realm. We compiled this information through a careful review of 1,216 studies published between 1941 and 2018	504 primate species	NA
9/17/2019 8:14:03	http://esapubs.org/archive/ecol/E082/042/appendix-A.htm	Diana Fisher		CC-BY	Adult female mass | Age at weaning | arboreality | diet type | diurnality | Female age at maturity | Gestation length | Inter-birth interval | Litter size | Mass at birth | Mass at pouch vacation | Mass at weaning | Maximum lifespan | Mean group size | Population density | shelter type	Australia | Papua New Guinea | South America			Mammalia | Marsupials		https://doi.org/10.1890/0012-9658(2001)082[3531:TEBOLH]2.0.CO;2	Marsupial trait data	Marsupials	NA
9/17/2019 8:21:25	https://doi.org/10.5061/dryad.jr3kh	Tobias Jeppsson		CC-0	body size | generation time | number of larval host plant species | adult activity period | overwintering stage before reproduction | substrate utilization breadth	Sweden			Beetles | Coleoptera | Cerambycidae		https://doi.org/10.1111/acv.12099	We compiled information on species’ traits for all residentSwedish longhorn beetles (Coleoptera: Cerambycidae) frompublished sources.		IUCN red list
9/17/2019 8:24:22	https://doi.org/10.5061/dryad.hp269	Katherine Eisen		CC-0	gynodioecious	Global			Plantae | Angiospermae		https://doi.org/10.1086/684260	angiosperm-wide database of gynodioecious species		NA
9/17/2019 8:30:45	https://doi.org/10.5285/2a353d2d-c1b9-4bf7-8702-9e78910844bc	Jon Webb		CC-BY	habitat-related traits | feeding guilds | conservation status | biotic interactions	England			Invertebrates		https://doi.org/10.5285/2a353d2d-c1b9-4bf7-8702-9e78910844bc	Contains habitat-related traits, feeding guilds, conservation status (including rarity and threat status), legal protection data and associations with other taxa for just over 11,700 invertebrates	11700 invertebrates	NA
9/30/2019 15:42:02	https://doi.org/10.5061/dryad.vk24fr1	Esra H. Sohlström | Malte Jochum	[email protected]	CC0 1.0 Universal (CC0 1.0) Public Domain Dedication	live body mass | body length | body width | taxonomic information	Tropical | Sumatra | Jambi province; Temperate | Germany | Lower Saxony			Araneae | Coleoptera | Dermaptera | Dictyoptera | Diptera | Geophilomorpha | Glomerida | Hemiptera | Hymenoptera | Isopoda | Julida | Lepidoptera | Lithobiomorpha | Neuroptera | Odonata | Opiliones | Orthoptera | Polydesmida | Pseudoscorpionida | Psocoptera | Scolopendromorpha	2014	10.1002/ece3.4702	Length-mass regression dataset to calculate live (fresh) body mass from body length, width, taxonomic group, and geographic region.		length mass regression			Tropical and temperate macroinvertebrate morphology Sohlström et al

legacy OTN dataset registration 9

legacy OTN dataset registration 9
from #45 as suggested by @bmaitner

-
    Timestamp: 9/17/2019 6:39:19
    datasetDOI_URL: http://www.fishbase.org/search.php
    contactName: Rainer Froese
    contactEmail: 
    license: CC-BY-NC
    traitList: biology | trophic ecology | life history
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Animalia | Chordata | Vertebrata | Fin Fish
    eventDate: 
    paperDOIcitation: http://fishbase.org/search.php
    description: FishBase is a global biodiversity information system on finfishes. It provides key facts on population dynamics for 200 major commercial species and has a wider range of data on all finfish species currently known in the world: taxonomy, biology, trophic ecology, life history, and uses
    taxaList: 33,000 fish species
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: FishBase
    datasetID: 
-
    Timestamp: 9/17/2019 6:45:58
    datasetDOI_URL: http://www.fishtraits.info/search/key/
    contactName: Emmanuel Frimpong
    contactEmail: 
    license: CC-BY
    traitList: trophic ecology | body size | reproductive ecology | life history | habitat preferences | salinity and temperature tolerances
    higherGeography: United States
    decimalLatitude: 
    decimalLongitude: 
    taxon: Chordata | Vertebrata | Fish
    eventDate: 
    paperDOIcitation:  https://doi.org/10.1577/1548-8446-34.10.487
    description: We have compiled a database of > 100 traits for 809 (731 native and 78 nonnative) fish species found in freshwaters of the conterminous United States, including 37 native families and 145 native genera.The database, named Fish Traits, contains information on four major categories of traits: (1) trophic ecology; (2) body size, reproductive ecology, and life history; (3) habitat preferences; and (4) salinity and temperature tolerances
    taxaList: Chordata | Vertebrata | Fish
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 6:53:09
    datasetDOI_URL: https://doi.org/10.6084/m9.figshare.c.3301274.v1
    contactName: Kate Jones
    contactEmail: 
    license: CC-BY
    traitList: life‐history | ecological | geographic | taxonomic
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Chordata | Mammalia 
    eventDate: 
    paperDOIcitation: https://doi.org/10.1890/08-1494.1
    description: Species‐level data set compiled for analysis of life history, ecology, and geography of all known extant and recently extinct mammals
    taxaList: Chordata | Mammalia
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 

legacy OTN dataset registration 3

legacy OTN dataset registration 3
from #45 as suggested by @bmaitner

-
    Timestamp: 8/28/2019 17:18:01
    datasetDOI_URL: http://www.compadre-db.org/
    contactName: Rob Salguero-Gómez
    contactEmail: [email protected]
    license: CC-BY
    traitList: Survival | Development | Reproduction | Recruitment | and many more! See here: https://github.com/jonesor/compadreDB
    higherGeography: Continent | Country | Ecoregion | Lat | Lon
    decimalLatitude: -90
    decimalLongitude: -180
    taxon: Comprehensive coverage of plants (COMPADRE) and animals (COMADRE)
    eventDate: From 1945 to date
    paperDOIcitation: https://doi.org/10.1111/1365-2745.12334 | https://doi.org/10.1111/1365-2656.12482
    description: Demographic, taxonomic, biogeographic and phylogenetic information of thousand of plants and animals
    taxaList: Plantae and Animalia
    usefulClasses: Life stage, life history trait, vital rate, population growth rate
    dataStandard: 
    standardizationScripts: https://github.com/jonesor/compadreDB
    datasetName: Compadre
    datasetID: 
-
    Timestamp: 8/28/2019 18:58:23
    datasetDOI_URL: https://cran.r-project.org/web/packages/BIEN/index.html
    contactName: Brian J. Enquist | Brad Boyle | Cory Merow | Xiao Feng | Dan Park |Brian S. Maitner | BIEN working group
    contactEmail: [email protected]
    license: CC BY-NC-ND
    traitList: 53 plant traits
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Embryophyta
    eventDate: 
    paperDOIcitation: https://doi.org/10.1111/2041-210X.12861
    description: 
    taxaList: 
    usefulClasses: Aggregated data, primarily from published datasets
    dataStandard: 
    standardizationScripts: 
    datasetName: BIEN
    datasetID: 
-
    Timestamp: 8/29/2019 17:36:16
    datasetDOI_URL: http://www.esapubs.org/archive/ecol/E088/096/default.htm
    contactName: Terje Lislevand
    contactEmail: 
    license: CC BY 4.0
    traitList: "M_mass | M_mass_N | F_mass | F_mass_N | Unsexed_mass | Unsexed_mass_N | M_wing | M_wing_N | F_wing | F_wing_N | Unsexed_wing | Unsexed_wing_N | M_tarsus | M_tarsus_N | F_tarsus | F_tarsus_N | Unsexed_tarsus | Unsexed_tarsus_N | M_bill | M_bill_N | F_bill | F_bill_N | Unsexed_bill | Unsexed_bill_N | M_tail  | M_tail_N | F_tail | F_tail_N | Unsexed_tail  | Unsexed_tail_N | Clutch_size | Egg_mass | Mating_System | Display | Resource \n"
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Aves
    eventDate: 
    paperDOIcitation: http://www.esapubs.org/archive/ecol/E088/096/default.htm
    description: Avian body sizes in relation to fecundity, mating system, display behavior, and resource sharing
    taxaList: 
    usefulClasses: literatureData
    dataStandard: 
    standardizationScripts: 
    datasetName: Global Avian Traits Lislevand 
    datasetID: 

add contributor guide

Add section in project README to describe how you can contribute to the project.

margins too wide on the style sheet for main pages

@jmadin can we widen the margins a little to make the text easier to see? Thanks

I'd like to join the Open Traits Network

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: lsantini
name: Luca Santini
email: [email protected]
homepage: https://lucasantini.com
lat: 41.899
long: 12.514
affiliation: Institute of Research on Terrestrial Ecosystems, IRET-CNR, Viale dell’Università 32, 00185, Rome, Italy
---

Luca is a researcher in conservation biogeography and macroecology based in Rome, Italy. 

## Collaboration statement
Most of my research is at the interface between macroecology, biogeography, conservation biology and global change biology. My research relies heavily on biodiversity and trait databases, and I produced one myself (TetraDENSITY) that collates population density estimates for terrestrial vertebrates worldwide. 

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

legacy OTN dataset registration 10

legacy OTN dataset registration 10
from #45 as suggested by @bmaitner

-
    Timestamp: 9/17/2019 7:01:23
    datasetDOI_URL: https://doi.org/10.5061/dryad.bp26v20
    contactName: Søren Faurby
    contactEmail: 
    license: CC-0
    traitList: Aerial | Diet.Invertebrate | Diet.Plant | Diet.Vertebrate | Freshwater | Island.Endemicity | Life.Habit.Method | Marine | Mass.Comparison | Mass.g | Terrestrial
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Chordata | Mammalia
    eventDate: 
    paperDOIcitation: 10.1002/ecy.2443
    description: PHYLACINE, The Phylogenetic Atlas of Mammal Macroecology. This taxonomically integrated platform contains phylogenies, range maps, trait data, and threat status for all 5,831 known mammal species that lived since the last interglacial (~130,000 years ago until present)
    taxaList: 5,831 mammals
    usefulClasses: extinct taxa 
    dataStandard: 
    standardizationScripts: 
    datasetName: PHYLACINE
    datasetID: 
-
    Timestamp: 9/17/2019 7:41:16
    datasetDOI_URL: https://doi.org/10.5281/zenodo.2600338
    contactName: Carmen Galán-Acedo
    contactEmail: 
    license: CC-BY
    traitList: home range size | locomotion type | diel activity | trophic guild | body mass | habitat type | current conservation status | population trend | geographic realm
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Mamalia | Primates
    eventDate: 
    paperDOIcitation: https://doi.org/10.1038/s41597-019-0059-9
    description: A database on some important ecological traits of the world’s primates (504 species), including home range size, locomotion type, diel activity, trophic guild, body mass, habitat type, current conservation status, population trend, and geographic realm. We compiled this information through a careful review of 1,216 studies published between 1941 and 2018
    taxaList: 504 primate species
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 8:14:03
    datasetDOI_URL: http://esapubs.org/archive/ecol/E082/042/appendix-A.htm
    contactName: Diana Fisher
    contactEmail: 
    license: CC-BY
    traitList: Adult female mass | Age at weaning | arboreality | diet type | diurnality | Female age at maturity | Gestation length | Inter-birth interval | Litter size | Mass at birth | Mass at pouch vacation | Mass at weaning | Maximum lifespan | Mean group size | Population density | shelter type
    higherGeography: Australia | Papua New Guinea | South America
    decimalLatitude: 
    decimalLongitude: 
    taxon: Mammalia | Marsupials
    eventDate: 
    paperDOIcitation: https://doi.org/10.1890/0012-9658(2001)082[3531:TEBOLH]2.0.CO;2
    description: Marsupial trait data
    taxaList: Marsupials
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 

add group picture to Aug 2018 New Orleans workshop

as suggested by @shandongfx -

I'd like to join the Open Traits Network

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: harry-j-potter
name: Harry J. Potter
email: [email protected]
homepage: 
lat: ???
long: ???
affiliation: Department of Magical Creatures, Hogwarts School for Witchcraft and Wizardry, Hogwarts, UK 
github: harrypotter
---

Harry is wizard. 

## Collaboration statement
I enjoy to play quidditch, ride my broom and study dragons.

I can offer expertise in functional traits of dragons, how to catch the snitch.

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

Do we need a web app for adding registry datasets and members?

I am keen to make sure new members who are not skilled in Git can join the network and/or add their datasets to the registry easily. @jmadin, @bmaitner @jhpoelen discussed the creation of a simple web app for this on Skype last week with differing opinions. My vote is for an app with the same fields as we already ask for in the members.md and for a Registry app with the fields in issue #30 . What do others think?

legacy OTN dataset registration 1

from #45 as suggested by @bmaitner

-
    Timestamp: 6/25/2019 14:45:39
    datasetDOI_URL: http://ecotaxonomy.org
    contactName: Anton Potapov | Dorothee Sandmann | Stefan Scheu
    contactEmail: [email protected]
    license: http://creativecommons.org/licenses/by-nc/4.0/
    traitList: Multiple morphological and ecological traits 
    higherGeography: Global | Sumatra | Ecuador | Canada | Europe
    decimalLatitude: 
    decimalLongitude: 
    taxon: Animalia | Arthropoda | Arachnida | Insecta | Myriapoda | Araneae | Collembola | Oribatida | Mesostigmata | Formicidae
    eventDate: 
    paperDOIcitation: 10.3897/biss.3.37146
    description: "Ecotaxonomy (ecotaxonomy.org), is an open web platform, that allows traits, taxa, individuals and samples to be linked within research projects. Any morphological or ecological traits can be customized inside the system and attached either to taxa, individuals, or environmental samples. The system is flexible to include any group of organisms. The taxonomic system of Ecotaxonomy is based on the Global Biodiversity Information Facility (gbif.org), but may be complemented by morphospecies, pictures, literature and other parameters. As public output, the system provides interactive\nidentification keys and web catalogs of traits and taxa."
    taxaList: Multiple groups of organisms (focused on Arthropoda)
    usefulClasses: morphology, inferred traits, ecological traits, taxonomic traits, individual traits
    dataStandard: Internal standards will be linked to Darwin Core and Ecological Trait-Data Standard via API interface
    standardizationScripts: 
    datasetName: Ecotaxonomy
    datasetID: 
-
    Timestamp: 8/22/2019 15:03:02
    datasetDOI_URL: https://doi.org/10.6084/m9.figshare.4644424
    contactName: Brunno Freire Oliveira | Gabriel C. Costa
    contactEmail: 
    license: CC BY 4.0
    traitList: Habitat | Diet | Circadian_activity_rhythm | Seasonality | Body_weight | Age_at_mature_min_y | Age_at_mature_max_y | Body_length | Size_at_mature_min_mm | Size_at_mature_max_mm | Longevity_min_y | Longevity_max_y | Litter_size_min_n | Litter_size_max_n | Reproductive_output_y | Offspring_size_min_mm | Offspring_size_min_mm | Breeding strategy
    higherGeography: Africa | Asia | Europe | North America | Oceania | South America
    decimalLatitude: 
    decimalLongitude: 
    taxon: Amphibia
    eventDate: 
    paperDOIcitation: 10.1038/sdata.2017.123
    description: Global database for amphibian ecological traits (collection of data from literature)
    taxaList: 
    usefulClasses: literatureData
    dataStandard: none
    standardizationScripts: 
    datasetName: AmphiBio
    datasetID: 
-
    Timestamp: 8/22/2019 15:18:05
    datasetDOI_URL: https://doi.org/10.3897/BDJ.2.e4123
    contactName: Audrey Trochet
    contactEmail: 
    license: CC-0
    traitList: Body_weight | Male_body_length | Female_body_length | Body_length | Foot length | Tibia length | Hind limb length | Metamorphosis size | Number of eggs | Survival rates in adults | Sexual maturity | Movement ability
    higherGeography: Europe
    decimalLatitude: 
    decimalLongitude: 
    taxon: Amphibia
    eventDate: 
    paperDOIcitation: https://doi.org/10.3897/BDJ.2.e4123
    description: A database of life-history traits of European amphibians (collection of data from literature)
    taxaList: 
    usefulClasses: literatureData
    dataStandard: none
    standardizationScripts: 
    datasetName: European Amphibian Traits Trochet
    datasetID: 

I'd like to join the Open Traits Network

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: dylan-craven
name: Dylan Craven
email: [email protected]
homepage: https://dylancraven.weebly.com/
lat: -33.445
long: -70.663
affiliation: Centro de Modelación y Monitoreo de Ecosistemas (CEM), Universidad Mayor, Santiago, Chile
github: dylancraven
---

Dylan is a plant ecologist and biographer based in Santiago, Chile. 

## Collaboration statement

I am interested in temporal and spatial patterns of biodiversity change and its implications. I am particularly fascinated by the role of biodiversity in driving the capacity of ecosystems to resist and recover from global change drivers.

I can offer expertise in combining and cleaning data from disparate sources and am keen to get a regional working group for South America started.

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

point opentraits.org DNS to open-traits-network.github.io

Suggest to point opentraits.org to https://github.com/open-traits-network/open-traits-network.github.io using https://www.namecheap.com/support/knowledgebase/article.aspx/9645/2208/how-do-i-link-my-domain-to-github-pages

cc @bmaitner

Liaising with the Alliance for Biodiversity Knowledge

Hello, all,

The greater biodiversity data community has had a bunch of meetings recently and another call-to-action paper has come out. It refers to a new community website and the discussion section has a thread for listing existing collaborations for supporting biodiversity data interoperability. Could be a place to introduce the trait registry, or to look for related initiatives.

legacy OTN dataset registration 7

legacy OTN dataset registration 7
from #45 as suggested by @bmaitner

-
    Timestamp: 9/17/2019 5:21:45
    datasetDOI_URL: https://doi.org/10.1111/jvs.12646
    contactName: Markus Bernhardt‐Römermann
    contactEmail: 
    license: CC-By
    traitList: "growth form | stem | shoot length | life form |  life strategy | protonema | Hyalin\nhairpoint | dominants | distribution of gametangia | seta | capsules | size of spores | spore ornamentation | fruiting | vegetative dispersal traits"
    higherGeography: Germany
    decimalLatitude: 
    decimalLongitude: 
    taxon: Embryophyta | Bryophyta
    eventDate: 
    paperDOIcitation: https://doi.org/10.1111/jvs.12646
    description: A compilation of autecological information and morphological and regenerative trait data on different stages of the life cycle of bryophytes occurring in forest ecosystems. The database contains information for 35 traits and 721 Central European bryophyte species; in total more than 23,000 trait values
    taxaList: 721 Central European bryophyte species
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 5:44:30
    datasetDOI_URL: http://doi.org/10.5061/dryad.1cv08,
    contactName: Joanne Bennett
    contactEmail: [email protected]
    license: CC-BY
    traitList: "Tmax | max_metric | error | error measure | Multiple measures | max_interval_after_LT0 | Tmax_2 | max_metric_2\terror | error measure | max_interval_before_LT100 | max_pretreatment | max_ramp | lat_max | long_max\televation_max | REF_max | location_max | N | tmin | min_metric | Multiple measures_min | min_interval_after_LT0 | tmin_2 | min_metric_2 | min_interval_before_LT100 | min_pretreatment | ramp_min\t"
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Chlorophyta | Plantae | Fungi | Animalia
    eventDate: 
    paperDOIcitation: doi: 10.1038/sdata.2018.22
    description: Thermal tolerance metrics for 2,133 species of multicellular algae, plants, fungi, and animals in 43 classes, 203 orders and 525 families from marine, intertidal, freshwater, and terrestrial realms, extracted from published studies. Updates to the data and metadata will be curated through the iDiv data portal https://idata.idiv.de/
    taxaList: Chlorophyta | Plantae | Fungi | Animalia
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 5:49:20
    datasetDOI_URL: https://doi.org/10.5061/dryad.f6t39kj
    contactName: Shai Meiri
    contactEmail: [email protected]
    license: CC-BY
    traitList: body size | ecological | thermal biology | geographic | phylogenetic | life history data
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Reptilia
    eventDate: 
    paperDOIcitation: https://doi.org/10.1111/geb.12773
    description: Geographical, morphological, ecological, physiological and life history data for the 6,657 known species of lizards
    taxaList: Reptilia
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 

add trait dataset registry entries

@caterinap suggested to re-use the existing google spreadsheet to populate the trait dataset registry entries.

remove 'posts' page

I don't think we should include a Posts page on the site anymore. What do others think? @bmaitner @jhpoelen @jmadin @iimog @caterinap

I'd like to join the Open Traits Network

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: paul-e-santos-andrade
name: Paul Efren Santos Andrade
email: [email protected]
homepage: https://paulefrensa.rbind.io
lat: -13.521735
long: -71.959390
affiliation: Universidad Nacional de San Antonio Abad del Cusco  
github: PaulESantos
---

I'm a plant ecologist based in Cusco - Peru. 

## Collaboration statement
I'm working with plant traits along high altitude grassland in Peru. 

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

new fields for trait registry

Discussion about the need to pare back the trait dataset registry to only provide essential information with @jhpoelen @jmadin @bmaitner @rachaelgallagher. Five fields were suggested:

• doi link
• curator
• taxa
• scope --> number of observations; number of taxa

I'd like to join the Open Traits Network

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: Jhonatan
name: Jhonatan Sallo-Bravo
email: [email protected]
homepage: 
lat: -13.530337
long: -71.950885
affiliation: Universidad Nacional De San Antonio Abad Del Cusco 
github: Jhonatan-Sallo
---

Jhonatan is a plant ecologist. 

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

I'd like to join the Open Traits Network

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: lembrechtsjonas
name: Jonas Lembrechts
email: [email protected]
homepage: https://www.the3dlab.org
lat: 51.162556
long: 4.403669
affiliation: Research Group Plants and Ecosystems, University of Antwerp, Belgium 
github: lembrechtsjonas
---

Jonas is a biogeography enthusiast based in Antwerp, yet working on global questions. 

## Collaboration statement
I play a leading role in two international networks with ties to plant traits: MIREN, the Mountain Invasion Research Network (www.mountaininvasions.org) and SoilTemp, a global database of soil temperature time series (soiltemp.weebly.com). I can thus contribute expertise on the broader biogeographical patterns in plant traits. My geographical focus lies on mountain environments, where I study how local climate and land use shape these plant traits. 
Always looking for: in-situ measured soil temperatures linked to trait observations to feed in to the SoilTemp database.

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

pick a framework (jekyll, hugo, none) if needed

Static site generators like jekyll or hugo can help make it easier to maintain the trait website.

GitHub pages natively supports jekyll, not quite sure about Hugo or other frameworks.

Ideas?

legacy OTN dataset registration 11

legacy OTN dataset registration 11
from #45 as suggested by @bmaitner

-
    Timestamp: 9/17/2019 8:21:25
    datasetDOI_URL: https://doi.org/10.5061/dryad.jr3kh
    contactName: Tobias Jeppsson
    contactEmail: 
    license: CC-0
    traitList: body   size | generation  time | number  of  larval  host  plant  species | adult  activity  period | overwintering  stage  before reproduction | substrate  utilization breadth
    higherGeography: Sweden
    decimalLatitude: 
    decimalLongitude: 
    taxon: Beetles | Coleoptera | Cerambycidae
    eventDate: 
    paperDOIcitation: https://doi.org/10.1111/acv.12099
    description: We compiled information on species’ traits for all residentSwedish longhorn beetles (Coleoptera: Cerambycidae) frompublished   sources.   
    taxaList: 
    usefulClasses: IUCN red list
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 8:24:22
    datasetDOI_URL: https://doi.org/10.5061/dryad.hp269
    contactName: Katherine Eisen
    contactEmail: 
    license: CC-0
    traitList: gynodioecious
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Plantae | Angiospermae 
    eventDate: 
    paperDOIcitation: https://doi.org/10.1086/684260
    description: angiosperm-wide database of gynodioecious species
    taxaList: 
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 8:30:45
    datasetDOI_URL: https://doi.org/10.5285/2a353d2d-c1b9-4bf7-8702-9e78910844bc
    contactName: Jon Webb
    contactEmail: 
    license: CC-BY
    traitList: habitat-related traits | feeding guilds | conservation status | biotic interactions
    higherGeography: England
    decimalLatitude: 
    decimalLongitude: 
    taxon: Invertebrates
    eventDate: 
    paperDOIcitation: https://doi.org/10.5285/2a353d2d-c1b9-4bf7-8702-9e78910844bc
    description: Contains habitat-related traits, feeding guilds, conservation status (including rarity and threat status), legal protection data and associations with other taxa for just over 11,700 invertebrates
    taxaList: 11700 invertebrates
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/30/2019 15:42:02
    datasetDOI_URL: https://doi.org/10.5061/dryad.vk24fr1 
    contactName: Esra H. Sohlström | Malte Jochum
    contactEmail: [email protected]
    license:  CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
    traitList: live body mass | body length | body width | taxonomic information
    higherGeography: Tropical | Sumatra | Jambi province; Temperate | Germany | Lower Saxony
    decimalLatitude: 
    decimalLongitude: 
    taxon: Araneae | Coleoptera | Dermaptera | Dictyoptera | Diptera | Geophilomorpha | Glomerida | Hemiptera | Hymenoptera | Isopoda | Julida | Lepidoptera | Lithobiomorpha | Neuroptera | Odonata | Opiliones | Orthoptera | Polydesmida | Pseudoscorpionida | Psocoptera | Scolopendromorpha
    eventDate: 2014
    paperDOIcitation: 10.1002/ece3.4702
    description: Length-mass regression dataset to calculate live (fresh) body mass from body length, width, taxonomic group, and geographic region.
    taxaList: 
    usefulClasses: length mass regression
    dataStandard: 
    standardizationScripts: 
    datasetName: Tropical and temperate macroinvertebrate morphology Sohlström et al
    datasetID: 

add "edit" button to each page

Currently, the member profiles have an "edit" link to help facilitate update a profile.

Suggest to add an "edit" button for each opentrait website page to make it easier to update / add content.

Different file extensions on member images

Image files in images/map folder have a range of different file extensions - e.g., jpg, jpeg, JPG, and png. Maybe someone knows some clever code to deal with this for the _layouts/member.html file. Otherwise, I'm afraid we will need to standardize these.

apply consistent style to opentraits.org pages

Currently, we have the original opentraits.org pages mixed with membership (#3) and dataset registry (#4) pages .

Proposed is to somehow link the pages and apply a consistent style so that https://opentraits.org comes across as inviting and organized.

Here's the section on "theme's" in the Jekyll documentation: https://jekyllrb.com/docs/themes/ .

Please add the Coral Trait Database to the OTN dataset registry

Please fill out the template below and click "submit" to request a trait dataset to the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your submission.

---
layout: dataset
id: coral-traits
name: The Coral Trait Database
datasetDOI_URL: https://doi.org/10.6084/m9.figshare.2067414
contactName: Joshua Madin
contactEmail: [email protected]
license: CC0
traitList: 150 coral traits
higherGeography: Global
decimalLatitude:
decimalLongitude:
taxon: Scleractinia
eventDate: about 1800 to current
paperDOIcitation: 10.1038/sdata.2016.17
description: The Coral Trait Database is a growing compilation of scleractinian coral life history trait, phylogenetic and biogeographic data. As of today, there are 68494 coral observations with 106462 trait entries of 158 traits for 1548 coral species in the database. Most of these entries are for shallow-water, reef-building species.
usefulClasses: Mostly in-situ measurements of individual corals
dataStandard: 
standardizationScripts: 
webpage: https://coraltraits.org
---

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_datasets#readme for information on registration process.

add taxonomic expertise to profiles/maps

Following the suggestion of @jhpoelen , I'm opening a new issue to discuss the questions about adding taxonomic expertise to the profiles/maps raised by @iimog

"I really like the suggestion to filter the map by taxonomic expertise and I have an idea on how to implement it. But I think we need to discuss how we want to handle this information in general: does every member need to add a taxonomic expertise, do we restrict it to predefined values, can members be experts in multiple groups, etc. If we decide on exactly one group out of a predefined set for every member we could also use distinct pins with specific icons in addition to the filtering."

translate content to other languages

@RobSalGo has offered to translate our content to Spanish which would be excellent. @shandongfx are you at all interested in doing a mandarin translation for us? I am not sure how much work would be involved in this task though, so please advise if it's not easily feasible. Any other language suggestions?

legacy OTN dataset registration 5

legacy OTN dataset registration 5
from #45 as suggested by @bmaitner

-
    Timestamp: 9/4/2019 18:43:54
    datasetDOI_URL: http://polytraits.lifewatchgreece.eu/polytraits
    contactName: Sarah Faulwetter
    contactEmail: 
    license: Creative Commons Attribution 3.0
    traitList: broad range, ~60 traits
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Polychaeta
    eventDate: 
    paperDOIcitation: doi:10.3897/BDJ.2.e1024
    description: A database on biological traits of polychaetes
    taxaList: 
    usefulClasses: adult|larval
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/5/2019 2:25:20
    datasetDOI_URL: http://globalants.org/
    contactName: Heloise Gibb
    contactEmail: [email protected]
    license: We have a "Terms of Use" document modelled on TRY
    traitList: "Head.width.across.eyes..mm|Head.length..mm|Clypeus.length..mm|\tMandible.length..mm|Hind.femur.length..mm|Scape.length..mm|\tWeber.s.length..mm|Pronotum.width..mm|Inter.ocular.width..mm|\tMax.eye.width..mm|Whole.body.length..mm|Sculpturing|Pilosity|Number.of.Spines|Dominant.colour.head..Fig..16|Dominant.colour.mesosoma..Fig..16|Dominant.colour.gaster..Fig..16|Polymorphism|Queen.number|Worker.number|Colony.type|Colony.founding|Nest.Site|Activity|Diet\n"
    higherGeography: Multiple levels - from Continent to local
    decimalLatitude: -42.7
    decimalLongitude: -171.8
    taxon: Formicidae (ants)
    eventDate: 1949-2014
    paperDOIcitation: Parr, C. L., Dunn, R. R., Sanders, N. J., Weiser, M. D., Photakis, M., Bishop, T. R., ... & Gibb, H. (2017). GlobalAnts: a new database on the geography of ant traits (Hymenoptera: Formicidae). Insect Conservation and Diversity, 10(1), 5-20.
    description: Part of a database that also includes assemblage and abundance data for ants
    taxaList: Formicidae - should discuss how you want this as we have localised morphospecies in a lot of datasets
    usefulClasses: worker ants
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/5/2019 11:37:39
    datasetDOI_URL: https://doi.pangaea.de/10.1594/PANGAEA.862968
    contactName: Philipp Brun
    contactEmail: 
    license: CC BY 3.0
    traitList: Body_size | Feeding_mode | Clearance_rates | Ingestion_rates | Spawning_strategy | Egg_size | Clutch_size | Fecundity | Myelination | Hibernation | Resting_eggs | Respiration_rates | Growth_rates | Development_duration
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: copepods
    eventDate: 
    paperDOIcitation: https://doi.org/10.5194/essd-9-99-2017, 2017
    description: A trait database for marine copepods
    taxaList: 
    usefulClasses: literatureData, expertKnowledge
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 

Linked content for reproducible science

We are building a set of resources and links to add to our website

add map to member profile

Currently, member la/lng is indicated with decimals.

Suggest to indicate member location by adding a little world map indicating member location.

Resources

Hi,

I just had a look at the website. In the resource section there are links to protocols and handbooks. The handbook for modular traits is linked twice. And it might be useful to use a more descriptive name. E.g. instead of plants -> leaf functional trait handbook, handbook for modular traits etc.

Best,
Aud

legacy OTN dataset registration 6

legacy OTN dataset registration 6
from #45 as suggested by @bmaitner

-
    Timestamp: 9/5/2019 11:45:23
    datasetDOI_URL: http://genomics.senescence.info/species/
    contactName: João Pedro de Magalhães
    contactEmail: 
    license: CC BY 3.0
    traitList: Female maturity | Male maturity | Gestation/Incubation | Weaning | Litter/Clutch size | Litters/Clutches per year| Inter-litter/Interbirth interval | Birth weight | Weaning weight | Adult weight | Growth rate | Maximum longevity | IMR | MRDT  | Metabolic rate | Body mass | Temperature
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Animalia
    eventDate: 
    paperDOIcitation: 10.1093/nar/gkx1042
    description: AnAge Database of Animal Ageing and Longevity
    taxaList: 
    usefulClasses: literatureData, observationalData
    dataStandard: 
    standardizationScripts: 
    datasetName: AnAge
    datasetID: 
-
    Timestamp: 9/13/2019 1:58:51
    datasetDOI_URL: https://media.nature.com/original/nature-assets/ncomms/2017/170801/ncomms16047/extref/ncomms16047-s14.xlsx
    contactName: Hervé Sauquet | Jürg Schönenberger
    contactEmail: [email protected]
    license: CC BY 4.0
    traitList: Sex | Ovary_position | Number_of_perianth_parts | Fusion_of_perianth | Symmetry_of_perianth | Perianth_phyllotaxy | Number_of_perianth_whorls | Perianth_merism | Perianth_differentiation | Number_of_fertile_stamens | Filament | Anther_orientation | Anther_attachment | Anther_dehiscence | Androecium_structural_phyllotaxy | Number_of_androecium_structural_whorls | Androecium_structural_merism | Gynoecium_phyllotaxy | Number_of_structural_carpels | Fusion_of_ovaries | Number_of_ovules_per_functional_carpel
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Angiospermae
    eventDate: 
    paperDOIcitation: 10.1038/ncomms16047
    description: Dataset of angiosperm floral traits (mostly structural), extracted from the PROTEUS database and built for the eFLOWER project; for more information on PROTEUS and eFLOWER, see www.eflower.org
    taxaList: 792 angiosperm species
    usefulClasses: literatureData
    dataStandard: 
    standardizationScripts: 
    datasetName: Proteus eFlower
    datasetID: 
-
    Timestamp: 9/17/2019 4:52:57
    datasetDOI_URL: https://doi.org/10.6084/m9.figshare.1499292
    contactName: Stephen Garnett
    contactEmail: [email protected]
    license: CC BY 4.0
    traitList: Distribution | Morphology | Habitat | Food | Behaviour | Breeding | Mobility | Climate metrics
    higherGeography: Australia
    decimalLatitude: 
    decimalLongitude: 
    taxon: Aves
    eventDate: 
    paperDOIcitation: doi:10.1038/sdata.2015.61
    description: Traits for all Australian birds
    taxaList: 
    usefulClasses: Adult
    dataStandard: None
    standardizationScripts: None
    datasetName: 
    datasetID:

Remove dataset map

Isn't really adding anything.

Hi I am Sandra Duran, I manage the latino channel of Open Traits in twitter, and keep asking people for trait data everywhere I go, so I should be listed as a member. Thanks!

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: rachael-v-gallagher
name: Rachael V Gallagher
email: [email protected]
homepage: http://example.org
lat: -33.77403
long: 151.115978
affiliation: Department of Biological Sciences, Macquarie University, Sydney, NSW, Australia 
github: rachaelgallagher
---

Rachael is a plant ecologist based in Sydney Australia. 

## Collaboration statement
I enjoy working on applied problems in plant conservation using spatial analyses and traits. My primary (soon to be) open trait dataset is AusTraits - a curated dataset on the traits of Australian plants. This resource was created with harmonisation pipeline created by my collaborator Daniel Falster.

I can offer expertise in workflows for cleaning occurrence data and combining with trait data. I am also happy to help connect people together around traits by running working groups, hosting visitors in my lab, organising symposia at conferences and maintaining our Open Traits website.

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

legacy OTN dataset registration 2

legacy OTN dataset registration 2
from #45 as suggested by @bmaitner

-
    Timestamp: 8/26/2019 16:25:08
    datasetDOI_URL: https://doi.org/10.5061/dryad.53ds2
    contactName: Martin M Gossner
    contactEmail: 
    license: CC BY 4.0
    traitList: Body_size | Dispersal_ability | Feeding_guild | Feeding_mode | Feeding_specialization | Feeding_tissue | Feeding_plant_part | Endophagous_lifestyle | Stratum_use | 
    higherGeography: Germany
    decimalLatitude: 
    decimalLongitude: 
    taxon: Arthropod
    eventDate: 2008 | 2009 | 2010 | 2011 | 2012
    paperDOIcitation: doi: 10.1038/sdata.2015.13
    description: A summary of eight traits of Coleoptera, Hemiptera, Orthoptera and Araneae, occurring in grasslands in Germany
    taxaList: Coleoptera | Hemiptera | Orthoptera | Araneae
    usefulClasses: adult, sweep-netting
    dataStandard: 
    standardizationScripts: 
    datasetName: German Grassland Arthropods Traits Gossner
    datasetID: 
-
    Timestamp: 8/26/2019 16:32:23
    datasetDOI_URL: https://esajournals.onlinelibrary.wiley.com/doi/abs/10.1002/ecy.1783
    contactName: Robert E. Ricklefs
    contactEmail: 
    license: CC0
    traitList: Body_length | Wing_length | Tail_length | Tarsus_length | Toe_length | Bill_length | Bill_width | Bill_depth | Biogeographic_region
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Passerine
    eventDate: 
    paperDOIcitation:  https://doi.org/10.1002/ecy.1783
    description: Passerine morphology: external measurements of approximately one‐quarter of passerine bird species
    taxaList: 
    usefulClasses: museum specimens
    dataStandard: 
    standardizationScripts: 
    datasetName: Global Passerine Morphology Ricklefs
    datasetID: 
-
    Timestamp: 8/28/2019 10:33:07
    datasetDOI_URL: https://www.try-db.org
    contactName: Jens Kattge
    contactEmail: [email protected]
    license: CC BY 
    traitList: 2091 plant traits, standardized according to http://top-thesaurus.org
    higherGeography: Global | Africa | Antarctica | Asia | Europe | North America | Oceania | South America
    decimalLatitude: 
    decimalLongitude: 
    taxon: Tracheophyta
    eventDate: about 1900 to current
    paperDOIcitation: 10.1111/j.1365-2486.2011.02451.x
    description: A database of databases for vascular plant traits, terrestrial and fresh-water.
    taxaList: 279,875 plant taxa, standardized mainly based on The Plant List
    usefulClasses: Mostly in-situ measurements on plant individuals
    dataStandard: Standardization of traits according to: http://top-thesaurus.org/; standardization of taxonomy mainly based on: http://www.theplantlist.org/
    standardizationScripts: https://www.try-db.org/TryWeb/Database.php
    datasetName: TRY
    datasetID:

I'd like to join the Open Traits Network

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: eveliina-p-kallioniemi
name: Eveliina P Kallioniemi
email: [email protected]
homepage: 
lat: 
long:
affiliation: Norwegian Biodiversity Information Centre  
github: 
---

Ecologist based in Norway. Coordinating national Trait Bank database for Norwegian species and nature types. 

---

I'd like to join the Open Traits Network

Please update the template below and click "Submit" to let us know you'd like to become a member of the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your request.

---
layout: member
id: mike-mcwilliam
name: Mike McWilliam
email: [email protected]
homepage: 
lat: 21.3996
long: -157.7974
affiliation: Hawaii Institute of Marine Biology, University of Hawaii, Kaneohe, HI, USA 
github: mjmcwilliam
---

Mike is a coral ecologist based in Hawaii.

## Collaboration statement
I'm broadly interested in the diversity and biogeography of organisms (mostly corals) and how human activities are influencing ecosystem functions. My work so far has explored the global biogeography of coral trait space and used traits to test the relationship between biodiversity and ecosystem function on coral reefs. In the future I hope to continue to use traits or trait space to gain a better understanding of the forces that drive individual, population, and ecosystem performance. I hope this work will utilise and supplement the OTN. 

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

Please add TetraDENSITY to the OTN dataset registry

Please fill out the template below and click "submit" to request a trait dataset to the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your submission.

---
layout: dataset
id: TDens
name: TetraDENSITY
datasetDOI_URL: https://figshare.com/articles/TetraDENSITY_Population_Density_dataset/5371633
contactName: Luca Santini
contactEmail: [email protected]
license: CC BY
traitList: >18,000 georeferenced and dated population density estimates in terrestrial vertebrates
decimalLatitude: Yes
decimalLongitude: Yes
taxon: Tetrapodes (Amphibians, Reptiles, Birds, Mammals)
eventDate: 1926 to present
paperDOIcitation: https://doi.org/10.1111/geb.12756
description: The dataset includes taxonomic information on species, population density estimate, year of data collection, season, coordinates of the locality, locality name, habitat, sampling method and sampling area.
taxaList: 79 sp. of Amphibians, 284 sp. Reptiles, 1174 sp. of Birds, 564 sp. of Mammals
usefulClasses: Individual population estimates
webpage presenting the latest version: https://lucasantini.com/tetradensity-database/
---

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_datasets#readme for information on registration process.

Please add [name] to the OTN dataset registry

Please fill out the template below and click "submit" to request a trait dataset to the Open Traits Network. Please allow for some time for @open-traits-network/editors to review your submission.

---
layout: dataset
id: AmP
name: AmP
datasetDOI_URL: https://www.bio.vu.nl/thb/deb/deblab/add_my_pet/
contactName: Bas Kooijman
contactEmail: [email protected]
license: CC BY
traitList: 272 trait observations of metabolic (including life history) traits for parameter estimates under the Dynamic Energy Budget theory framework
higherGeography: Global | Africa | Antarctica | Asia | Europe | North America | Oceania | South America
decimalLatitude:
decimalLongitude:
taxon: Animalia
eventDate: about 1900 to current
paperDOIcitation: 10.1371/journal.pcbi.1006100
description: A database of metabolic traits and associated parameter estimates for the Dynamic Energy Budget theory.
taxaList: 2026 animal taxa
usefulClasses: Mostly data relating to lengths and weights, development and reproduction rates (life history data) and mass exchanges (e.g. respiration rates, food consumption, etc.).
dataStandard: Standardization of traits according to http://www.debtheory.org/wiki/index.php?title=Data_types; standardization of taxonomy based on Catalog of Life,
the Encyclopedia of Life and Wikipedia
standardizationScripts: 
webpage: https://www.bio.vu.nl/thb/deb/deblab/add_my_pet/index.html
---

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_datasets#readme for information on registration process.

add OTN member profiles and map

as suggested by @iimog -

use something similar to this: https://www.de-rse.org/en/map.html which
is fed by a simple js file:
https://github.com/DE-RSE/www/blob/gh-pages/_includes/mapdata.js
including name, image, testimonial, ...

trait data registry review process

let's make it so people who add new datasets need to have a review process. In this way they will be introduced to members of the OTN.

create design for OTN badge and kingdom logos for map

Dan Park will take care of this will have him join the group here

first pass at architecture document

To help capture our ideas on how to improve the open traits network, we'd like to create an architecture document. This document is used to formulate imagined usage and discuss ways to support that usage. Used with next 1-5 years in mind, for short term planning and upcoming proposals.

Here's a starting point:
https://docs.google.com/document/d/1O-B4fJ-60URy_NODngD3j5NtrFfkzj94zFYDZsd_l3U/edit?usp=sharing

For now the document can be edited freely, but we can restrict access when needed. I imagine we can switch from docs to wiki / markdown when the document is a little more mature.

related to #14 (comment) .

fyi @bmaitner @jmadin @rachaelgallagher

legacy OTN dataset registration 8

legacy OTN dataset registration 8
from #45 as suggested by @bmaitner

-
    Timestamp: 9/17/2019 5:58:57
    datasetDOI_URL: http://www.esapubs.org/archive/ecol/E096/269/#data
    contactName: Nathan Myhrvold
    contactEmail: 
    license: CC-BY
    traitList: "female_maturity_d | litter_or_clutch_size_n | litters_or_clutches_per_y | adult_body_mass_g | maximum_longevity_y | gestation_d | weaning_d | birth_or_hatching_weight_g | weaning_weight_g | egg_mass_g\tincubation_d\t| fledging_age_d | longevity_y | male_maturity_d | inter_litter_or_interbirth_interval_y | female_body_mass_g | male_body_mass_g | no_sex_body_mass_g\tegg_width_mm | egg_length_mm | fledging_mass_g | adult_svl_cm\tmale_svl_cm\tfemale_svl_cm | birth_or_hatching_svl_cm | female_svl_at_maturity_cm | female_body_mass_at_maturity_g | no_sex_svl_cm | no_sex_maturity_d"
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Amniotes | Aves | Reptilia | Mammalia
    eventDate: 
    paperDOIcitation: https://doi.org/10.1890/15-0846R.1
    description: A normalized and consolidated database of up to 29 life-history parameters, containing at least one life-history parameter for 21 322 species of birds, mammals, and reptiles. In order to facilitate comparative analyses between amniote life‐history data, we created a database compiled from peer‐reviewed studies on individual species, macroecological studies of multiple species, existing life‐history databases, and other aggregated sources as well as published books and other compilations
    taxaList: Amniotes | Aves | Reptilia | Mammalia
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: http://www.esapubs.org/archive/ecol/E096/269/#data
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 6:04:17
    datasetDOI_URL: https://ars.els-cdn.com/content/image/1-s2.0-S0048969711001124-mmc1.pdf
    contactName: Ralf Schäfer
    contactEmail: 
    license: CC-BY
    traitList: reproduction type | food source | respiration mode| physiological sensitivity to salinity
    higherGeography: Australia
    decimalLatitude: 
    decimalLongitude: 
    taxon: Invertebrate families
    eventDate: 
    paperDOIcitation: https://doi.org/10.1016/j.scitotenv.2011.01.053
    description: We compiled a database on a priori selected traits for South-East Australian freshwater macroinvertebrate families
    taxaList: macroinvertebrates
    usefulClasses: NA
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 6:16:04
    datasetDOI_URL: https://doi.org/10.1111/acv.12350
    contactName: Lucie Bland
    contactEmail: 
    license: CC-BY
    traitList: Body size | Egg number | Chela size | Chela shape | Habitat breadth | Habitat type
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Arthropoda | Crustacea | Malacostraca
    eventDate: 
    paperDOIcitation: https://doi.org/10.1111/acv.12350
    description: Data on intrinsic (biology and ecology) and extrinsic (environment and threats) factors for 450 crayfish species assessed on the IUCN Red List
    taxaList: Arthropoda | Crustacea | Malacostraca
    usefulClasses: IUCN listed taxa
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 
-
    Timestamp: 9/17/2019 6:20:31
    datasetDOI_URL: https://doi.pangaea.de/10.1594/PANGAEA.862968
    contactName: Phillip Brun
    contactEmail: 
    license: CC-BY
    traitList: "body size | feeding mode  | egg size | spawning strategy  | respiration rate |  \n myelination"
    higherGeography: Global | Marine
    decimalLatitude: 
    decimalLongitude: 
    taxon: Animalia | Arthropoda | Copepoda
    eventDate: 
    paperDOIcitation: 10.5194/essd-2016-30
    description: A trait database for marine copepods. We compiled trait information on marine pelagic copepods, a major group of zooplankton, from the published literature and from experts, and organised the data into a structured database. We collected 9345 records for 14 functional traits. 
    taxaList: 
    usefulClasses: Marine
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: 

use consistent image path

Right now, we have two locations for image paths: /assets/img and /images.

Suggest to use a single folder to put images is. I'd favor /images .

Related to #12 .

Consider making tweetable videos showing how to join, add content, etc.

A lab mate suggested that we consider making short, tweetable videos showing how to join, add content, etc. Does this seem like it would be generally useful?

I'd like to join the Open Traits Network

---
layout: member
id: paula-m-mabee
name: Paula Mabee
email: [email protected]
homepage: https://www.usd.edu/faculty-and-staff/Paula-Mabee
lat: 42.7794
long: 96.9292
affiliation: Department of Biology, University of South Dakota, Vermillion, SD 57069, USA 
github: pmabee
---

Paula is a developmental and evolutionary biologist based at the University of South Dakota in the USA. 

## Collaboration statement
With team members in Phenoscape (Phenoscape.org) and many other collaborators in the biological and biomedical sciences, I am developing semantic methods to connect phenotypic trait data to other other data types and to use them to quickly and easy pull together trait data.  We are excited about the potential of these methods and all of our resources, code, publications, etc. are openly available.  A community that my colleagues and I developed through NSF funding, (2010-2017) called the 'Phenotype Ontology Research Coordination Network' (https://www.phenotypercn.org) grew to over 400 people interested in computing on traits.  I will be recommending OpenTraits network to this group.  

My Phenoscape colleagues and I can offer expertise in semantic markup for traits, help you develop a knowledgebase, and advise in the development of new semantic resources.  I am also happy to help connect people together around phenotypes by communicating one-on-one, putting others in contact with the broader life sciences community, and participating in meetings, workshops and venues.

Editors @open-traits-network/editors: please see https://github.com/open-traits-network/open-traits-network.github.io/tree/master/_members#readme for information on registration process.

legacy OTN dataset registration 4

legacy OTN dataset registration 4
from #45 as suggested by @bmaitner

-
    Timestamp: 8/29/2019 17:42:27
    datasetDOI_URL: http://www.esapubs.org/archive/ecol/E095/178/
    contactName: Walter Jetz
    contactEmail: 
    license: CC BY 4.0
    traitList: Diet | Foraging_stratum | Nocturnal | Body_mass
    higherGeography: Global
    decimalLatitude: 
    decimalLongitude: 
    taxon: Aves | Mammalia
    eventDate: 
    paperDOIcitation: 10.1890/13-1917.1
    description: 'EltonTraits 1.0: Species-level foraging attributes of the world''s birds and mammals'
    taxaList: 
    usefulClasses: literatureData
    dataStandard: 
    standardizationScripts: 
    datasetName: EltonTraits
    datasetID: 
-
    Timestamp: 8/29/2019 22:16:50
    datasetDOI_URL: https://figshare.com/articles/Catching_crabs_a_case_study_in_local_scale_English_conservation/979288
    contactName: Will Pearse
    contactEmail: [email protected]
    license: CCBY4
    traitList: diameter|sex
    higherGeography: Europe | United Kingdom | England | Norfolk | Wells-next-the-Sea
    decimalLatitude: 52.95
    decimalLongitude: 0.85
    taxon: Carcinus maenas
    eventDate: 2007-08
    paperDOIcitation: arXiv:1404.0290
    description: 
    taxaList: Carcinus maenas
    usefulClasses: carapace
    dataStandard: 
    standardizationScripts: https://github.com/willpearse/MADtraits/blob/master/R/downloads.R#L1180
    datasetName: Norfolk Carcinus maenas Pearse
    datasetID: 
-
    Timestamp: 9/4/2019 6:01:22
    datasetDOI_URL: https://doi.org/10.6084/m9.figshare.7996328.v2
    contactName: J. Aaron Hogan
    contactEmail: [email protected]
    license: CC by 4.0
    traitList: "Leaf Area | LeafPermiter | LeafWidth | LeafHeight | LeafCircularity | LeafAspectRatio | LeafRoundness | LeafMass | SLA | LeafThickness | RootMass |\nRootLength | SpecificRootLength | RootProjArea | RootArea | SpecifcRootArea | RootAvgDiam | RootLenPerVol | RootVolume | RootTD | NRootTips  | SRTipAbund   NForks  | NCrossings."
    higherGeography: Asia | China | Hainan Island | Jianfengling Forest Reserve 
    decimalLatitude: 
    decimalLongitude: 
    taxon: Plantae | Angiosperms
    eventDate: May - June 2017
    paperDOIcitation:  https://doi.org/10.1101/611640
    description: 
    taxaList: 
    usefulClasses: plant root and leaf traits, tropical trees
    dataStandard: 
    standardizationScripts: 
    datasetName: 
    datasetID: