phenoscape Goto Github PK

blazegraph-docker

Docker image for running a Blazegraph server

charaparser-unsupervised

Java implementation of the unsupervised bootstrapping algorithm used within the CharaParser application.

cmapobo

Tool for generating obo ontology files from Lifemap files generated by the CMAP tool

colao

The Coleoptera Anatomy Ontology contains terms used for describing the anatomy and phenotype of beetles in biodiversity research.

compute-expect

Statistical expect score computation for the Phenoscape Knowledgebase

enviropackets

exploration of using phenopackets to describe environments

fishtank

Visualize fish with attributes

generic_pipeline_for_trait_integration

goldstandard

homology-annotations-demo

Demonstration files for OWL homology models

kb-data-extracts

Queries (primarily in SPARQL) for data extraction from the Phenoscape KB

kb-datafest-2017

Promoting Phenoscape KB Data Access and Interoperability Codefest, 2017

kb-datafest-2017-linking-data

Linking data sets to Phenoscape

nexld

draft nexml to json-ld conversion. Perhaps better done in XSLT?

nexldrb

NeXML - JSON-LD converter

obdapi

The Ontology-Based Database (OBD) schema and API, used for fish.phenoscape.org

ontophenotype-eol

"Export ontology-based phenotype descriptions to the Encyclopedia of Life" GSOC project, for the OBD-based Phenoscape knowledgebase.

ontotrace

Tool for querying a local copy of the Phenoscape KB and generating an inferred presence-absence data matrix, for a given taxon and anatomy specification.

orb-manager

owlery

Owlery is a set of REST web services which allow querying of an OWL reasoner containing a configured set of ontologies.

owlet

A little OWL in SPARQL.

phenex

Phenex is an application for annotating character matrix files with ontology terms using the Entity-Quality syntax for describing phenotypes.

pheno-jsonld

notes on an interoperable format for expressing phenotypic data for taxa

pheno-repo

Repository of OWL-based phenotypic descriptions

phenoday-reasoning-paper

Demonstration code for paper submission to the Bio-ontologies SIG Phenotype Day at ISMB 2014.

phenoscape-builder

Build scripts for generating the Phenoscape RDF knowledgebase.

phenoscape-data

NeXML data files annotated by Phenoscape curators.

phenoscape-data-vis

Data visualization for Phenoscape database

phenoscape-kb-ingest

Translations of data sources into OWL axioms for import into the Phenoscape Knowlegebase.

phenoscape-kb-rdf-data

RDF/XML serialization of the Phenoscape RDF knowledgebase.