Topic: synthetic-biology Goto Github

👇 Here are 178 public repositories matching this topic...

20n / act
synthetic-biology,Computational synthetic biology: Predicting DNA edits for bioengineering
Organization: 20n
Home Page: http://20n.com
synthetic-biology deep-learning bioengineering data-mining computational-synthetic-biology fermentation acetaminophen biochemistry reaction-operators enzyme-function

amyris / amyrisbio
synthetic-biology,Amyris F# Computational Biology Library
Organization: amyris
synthetic-biology biology genetics bioinformatics

amyris / gslcore
synthetic-biology,Core library and basic plug-ins for the Amyris Genotype Specification Language (GSL) compiler.
Organization: amyris
gsl genotype-specification-language synthetic-biology biology bioinformatics compiler genetics

barricklab / ostir
synthetic-biology,Software for predicting translation initiation rates in bacteria
Organization: barricklab
synthetic-biology bioengineering rna-structure

basedlabs / nolabs
synthetic-biology,Open source biolab
Organization: basedlabs
ai bioinformatics folding webserver biolab proteins synthetic-biology

bebop / poly
synthetic-biology,A Go package for engineering organisms.
Organization: bebop
Home Page: https://pkg.go.dev/github.com/bebop/poly
synthetic-biology synbio genetic-engineering molecular-biology bioengineering computational-biology bioinformatics dna fasta genbank

brsynth / retropathrl
synthetic-biology,Reinforcement Learning based bioretrosynthesis tool
Organization: brsynth
synthetic-biology synbio metabolic-engineering retropath

brsynth / rp2paths
synthetic-biology,RetroPath2.0 to pathways
Organization: brsynth
synthetic-biology synbio

camelcasecam / cadberry
synthetic-biology,An IDE for synthetic biology
User: camelcasecam
synthetic-biology dna synbio

christophreich1996 / cell-detr
synthetic-biology,Official and maintained implementation of the paper "Attention-Based Transformers for Instance Segmentation of Cells in Microstructures" [BIBM 2020].
User: christophreich1996
Home Page: https://arxiv.org/pdf/2011.09763
bibm-2020 deep-learning attention instance-segmentation cell-segmentation synthetic-biology cell-detr transformer system-biology

christophreich1996 / multi-stylegan
synthetic-biology,Official and maintained implementation of the paper "Multi-StyleGAN: Towards Image-Based Simulation of Time-Lapse Live-Cell Microscopy" [MICCAI 2021].
User: christophreich1996
Home Page: https://arxiv.org/abs/2106.08285
gan generative-adversarial-network miccai miccai-2021 deep-learning synthetic-biology time-lapse-fluorescence-microscopy style-gan multi-stylegan

cidarlab / cello
synthetic-biology,Genetic circuit design automation
Organization: cidarlab
Home Page: http://www.cellocad.org/
genetic-circuit-design-automation synthetic-biology cello circuit boolean-logic bio-design-automation

cidarlab / cello-v2
synthetic-biology,Cello v2 is the continuation of the Cello genetic circuit design software.
Organization: cidarlab
cello genetic-circuit-design-automation synthetic-biology bio-design-automation

edinburgh-genome-foundry / bandwagon
synthetic-biology,🎺 Plot DNA digestion band patterns with Python
Organization: edinburgh-genome-foundry
Home Page: http://edinburgh-genome-foundry.github.io/BandWagon/
dna synthetic-biology molecular-biology agarose-gel plotting

edinburgh-genome-foundry / bandwitch
synthetic-biology,💫 Computer-aided DNA assembly validation and identification from restriction digests.
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/BandWitch/
synthetic-biology dna-assembly experimental-design fragment-analysis

edinburgh-genome-foundry / caravagene
synthetic-biology,🎨 Python library to plot multi-part genetic constructs
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/Caravagene/
synthetic-biology molecular-biology sequence-design dna-assembly

edinburgh-genome-foundry / crazydoc
synthetic-biology,Read DNA sequences from colourful Microsoft Word documents
Organization: edinburgh-genome-foundry
molecular-biology synthetic-biology dna-sequences computer-aided-design bioinformatics

edinburgh-genome-foundry / cuba
synthetic-biology,🏖️ The EGF Collection of Useful Bio Apps - Web demos of EGF software
Organization: edinburgh-genome-foundry
Home Page: http://cuba.genomefoundry.org
vuejs django synthetic-biology dna-assembly sequence-design docker-compose web-development

edinburgh-genome-foundry / dnacauldron
synthetic-biology,:alembic: Simple cloning simulator (Golden Gate etc.) for single and combinatorial assemblies
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/DnaCauldron/
cloning-simulator dna-assembly golden-gate molecular-biology synthetic-biology

edinburgh-genome-foundry / dnachisel
synthetic-biology,:pencil2: A versatile DNA sequence optimizer
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/DnaChisel/
sequence-design dna-optimization synthetic-biology bioinformatics synbio codon-optimization

edinburgh-genome-foundry / dnafeaturesviewer
synthetic-biology,:eye: Python library to plot DNA sequence features (e.g. from Genbank files)
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/DnaFeaturesViewer/
genbank visualization synthetic-biology molecular-biology bioinformatics dna-visualization

edinburgh-genome-foundry / dnaweaver
synthetic-biology,A route planner for DNA assembly
Organization: edinburgh-genome-foundry
Home Page: https://dnaweaver.genomefoundry.org
synthetic-biology dna-assembly cloning-strategy planning

edinburgh-genome-foundry / geneblocks
synthetic-biology,:diamond_shape_with_a_dot_inside: Find common blocks and differences between DNA sequences
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/Geneblocks/
synthetic-biology sequence-analysis python

edinburgh-genome-foundry / genedom
synthetic-biology,Batch domestication of genetic parts with Python
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/genedom/
synbio synthetic-biology sequence-design dna-assembly part-domestication

edinburgh-genome-foundry / genome_collector
synthetic-biology,:stars: Easily download genomes and build BLAST/Bowtie indexes in Python
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/genome_collector/
synbio bioinformatics blast python ncbi synthetic-biology taxid bowtie

edinburgh-genome-foundry / goldenhinges
synthetic-biology,:link: Short overhangs design for DNA assembly
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/GoldenHinges/
synthetic-biology dna-assembly sequence-design

edinburgh-genome-foundry / plateo
synthetic-biology,🤖 Python biolab automation library: parsers, reports generators, picklists simulators, and more
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/Plateo/
lab-automation synthetic-biology parser

edinburgh-genome-foundry / primavera
synthetic-biology,:cherry_blossom: Python library for primer-based verification of DNA assemblies: primer selection, data analyis, etc.
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/Primavera/
sequencing primer-design dna-assembly synthetic-biology

edinburgh-genome-foundry / sbol-visual-css
synthetic-biology,:curly_loop: Draw genetic elements with HTML & CSS
Organization: edinburgh-genome-foundry
Home Page: https://edinburgh-genome-foundry.github.io/SBOL-Visual-CSS/
synthetic-biology user-interface css sequence-design

edinburgh-genome-foundry / sequenticon
synthetic-biology,:space_invader: Generate identicons for DNA sequences with Python
Organization: edinburgh-genome-foundry
dna-sequences lims sequence-editing synthetic-biology

edinburgh-genome-foundry / tatapov
synthetic-biology,:paw_prints: DNA overhang misannealing data for Python
Organization: edinburgh-genome-foundry
Home Page: https://cuba.genomefoundry.org/view-overhangs-crosstalk
golden-gate synthetic-biology dna-assembly dna-design

gardner-binflab / tisigner-reactjs
synthetic-biology,TISIGNER: Unleash the power of synthetic biology
Organization: gardner-binflab
Home Page: https://tisigner.com
webserver bioinformatics-tool rna-structure multiprocessing protein structural-biology biotechnology simulated-annealing translation-initiation-site solubility

georgeoshardo / symbac
synthetic-biology,Accurate segmentation of bacterial microscope images using synthetically generated image data.
User: georgeoshardo
Home Page: https://doi.org/10.1186/s12915-022-01453-6
biology image-processing microscopy segmentation synthetic-biology

hiyama341 / teemi
synthetic-biology,teemi: A Python package for reproducible and FAIR microbial strain construction. Simulate the entire dbtl-cycle, generate genetic parts, design libraries, and track samples. Open-source Python platform for workflow flexibility and automated tasks, accelerating metabolic engineering. Try teemi with our Google Colab notebooks!
User: hiyama341
bio-cad ht-strain-construction machine-learning-guided-engineering-of-biology metabolic-engineering synthetic-biology

jvrana / dasi-dna-design
synthetic-biology,A Python molecular biology CAD tool with a dead-simple user interface
User: jvrana
Home Page: https://jvrana.github.io/DASi-DNA-Design/
bioinformatics biotechnology cad dna molecular-biology synthetic-biology

jvrana / terrarium
synthetic-biology,Computer-Aided Process Planner (CAPP) for Synthetic Biology Research
User: jvrana
automation science experiments bioengineering cad synthetic-biology protocol aquarium

koeng101 / dnadesign
synthetic-biology,A Go package for designing DNA.
User: koeng101
bioinformatics codon-optimization codon-usage computational-biology dna-barcode dna-folding fasta fastq genbank genetic-engineering go goldengate molecular-biology pileup plasmids rna-folding sam synbio synthetic-biology

lattice-automation / seqviz
synthetic-biology,a JavaScript DNA, RNA, and protein sequence viewer
Organization: lattice-automation
Home Page: https://tools.latticeautomation.com/seqviz
dna igem synthetic-biology vector plasmid rna biology protein

madewithbio / madewithbio.github.io
synthetic-biology,Learn how to create with biology.
Organization: madewithbio
Home Page: https://madewithbio.com
biology synthetic-biology machine-learning

mauriceling / advancesyntoolkit
synthetic-biology,Toolkit for Modelling and Simulation of Gene Expressions and Metabolism
User: mauriceling
Home Page: https://github.com/mauriceling/advancesyntoolkit/wiki
modeling-tool simulation-toolkit python3 metabolic-models metabolic-pathways systems-biology synthetic-biology computational-biology metabolic-engineering bioinformatics

merck / deepbgc
synthetic-biology,BGC Detection and Classification Using Deep Learning
Organization: merck
Home Page: https://doi.org/10.1093/nar/gkz654
deepbgc bidirectional-lstm pfam2vec biosynthetic-gene-clusters natural-products python deep-learning synthetic-biology

meuleman / synthseqs
synthetic-biology,Data-driven design of context-specific regulatory elements
User: meuleman
computational-biology pytorch synthetic-biology regulatory-genomics

myjr52 / dynsys.matlab.python
synthetic-biology,Book Website: Dynamic System Modelling & Analysis with MATLAB & Pythobn
User: myjr52
matlab python quaternion attitude-estimation attitude-controller attitude-dynamics quadcopter uav path-planning systems-biology

psweens / v-system
synthetic-biology,A project to create synthetic vascular networks utilising L-Systems.
User: psweens
l-systems lindenmayer-systems synthetic-biology blood-vessels vasculature vascular-networks in-silico-model

robertosolari / biotech-resources
synthetic-biology,Resources for learning Biotechnology, Biology, Synthetic Biology, Genomic and Bioinformatic
User: robertosolari
bioinformatics biology biotech biotechnology genetics synbio synthetic-biology

seek4science / seek
synthetic-biology,For finding, sharing and exchanging Data, Models, Simulations and Processes in Science.
Organization: seek4science
Home Page: http://www.seek4science.org
isa science systems-biology synthetic-biology fair data publication opendata datamanagement semantic-web

synbiohub / synbiohub
synthetic-biology,Web application enabling users and software to browse, upload, and share synthetic biology designs
Organization: synbiohub
Home Page: https://wiki.synbiohub.org
synthetic-biology sbol rdf

synbiohub / synbiohub3
synthetic-biology,Web application enabling users and software to browse, upload, and share synthetic biology designs. This repository is a redesign of the original SynBioHub using React and Spring Boot.
Organization: synbiohub
rdf synthetic-biology sbol synbiohub

timothystiles / how-to-synbio
synthetic-biology,The resources I always recommend to new synthetic biologists.
User: timothystiles
synthetic-biology synbio genetic-engineering getting-started awesome-list awesome-synthetic-biology awesome-synbio

usnistgov / lantern
synthetic-biology,Interpretable genotype-phenotype landscape modeling
Organization: usnistgov
bioinformatics machine-learning computational-biology synthetic-biology protein-engineering