genetics

There are 71 repositories under genetics topic.

hail
hail-is / hail
Cloud-native genomic dataframes and batch computing
bioinformatics genetics genomics gwas hail python software vcf
Language:Python 936
MareesAT / GWA_tutorial
A comprehensive tutorial about GWAS and PRS
gwas qc prs r plink genetics population-structure unix population-stratification genomics bioinformatics
757
self-parking-car-evolution
trekhleb / self-parking-car-evolution
🧬 Training the car to do self-parking using a genetic algorithm
threejs three-js cannonjs cannon-js evolutionary-algorithms evolutionary-algorithm genetic-algorithm self-driving-car genetics
Language:TypeScript 708
wilkox / gggenes
➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2
r ggplot2 genetics
Language:R 465
cellrank
theislab / cellrank
CellRank: dynamics from multi-view single-cell data
machine-learning single-cell-rna-seq bioinformatics rna-velocity markov-chains genetics data-science fuzzy-clustering-analyses manifold-learning single-cell-genomics trajectory-generation cell-fate-transitions cell-fate-determination
Language:Python 298
intermine
intermine / intermine
A powerful open source data warehouse system
data-warehouse java tomcat genomics open-source opensource lgplv3 postgresql clojure clojurescript biology tomcat8 webservices api perl python bioinformatics genetics data-visualisation data-visualization
Language:Java 248
sgkit-dev / sgkit
Scalable genetics toolkit
genetics statistical-genetics gwas pydata statgen popgen
Language:Python 213
lgmgeo / AnnotSV
Annotation and Ranking of Structural Variation
genetics sv cnv annotation ranking priorization ngs
Language:Tcl 192
tskit-dev / msprime
Simulate genealogical trees and genomic sequence data using population genetic models
python coalescent trees tskit genetics genomics simulation msprime
Language:Python 167
DecodeGenetics / graphtyper
Population-scale genotyping using pangenome graphs
genotype variants graph genetics decode-genetics bioinformatics
Language:C++ 161
apriha / lineage
tools for genetic genealogy and the analysis of consumer DNA test results
dna genes genetics genealogy snps chromosomes genotype bioinformatics ancestry
Language:Python 141
zhanxw / rvtests
Rare variant test software for next generation sequencing data
association-analysis c-plus-plus genetics genotype gwas kernel meta-analysis next-generation-sequencing ngs rare-variant skat umich variants vcf-files
Language:C++ 125
cmap / cmapPy
Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute) data/tools
gctx gct grp pandas gene genetics
Language:Python 117
awesome-genetics
plashchynski / awesome-genetics
A curated list of awesome personal genomics software, libraries, and educational resources.
genetics genomics 23andme ancestry geneology bioinformatics dna health snpedia consumer-dna-test
111
molgenis / molgenis
MOLGENIS - for scientific data: management, exploration, integration and analysis.
molgenis java lifescience genetics bioinformatics biobank catalogue javascript freemarker
Language:Java 109
mentatpsi / OSGenome
An Open Source Web Application for Genetic Data (SNPs) using 23AndMe and Data Crawling Technologies
23andme snps genome data-crawling python genetic-data kendo flask genetics snpedia raw-data
Language:Python 107
cx0 / chatGPT-for-genetics
Chat with Open Targets genetics database leveraging text-to-graphQL capabilities of OpenAI Codex.
chatgpt chatgpt-api genetics graphql open-targets openai openai-api text-to-graphql
Language:Python 90
labsquare / cutevariant
A standalone and free application to explore genetics variations from VCF file
genetics variant-call-format vcf gui pyside2 python3
Language:Python 89
ODiogoSilva / TriFusion
Streamlining phylogenomic data gathering, processing and visualization
genetics gui kivy orthologues phylogenetics phylogenomic python visualization
Language:Python 87
ArnovanHilten / GenNet
Framework for Interpretable Neural Networks
interpretable-neural-networks genetics neural-network deep-learning gennet genotype machine-learning neural-networks
Language:Jupyter Notebook 85
RCollins13 / HumanIdiogramLibrary
Resource of human chromosome schematics & images
genetics genomics genomics-visualization data-visualization resources
84
Griffan / VerifyBamID
VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
genetics dna-sequences qc-analysis contamination bioinformatics biostatistics bam cram
Language:mupad 83
hardingnj / xpclr
Code to compute the XP-CLR statistic to infer natural selection
bioinformatics genetics popgen selection
Language:Python 83
mmkim1210 / GeneticsMakie.jl
🧬High-performance genetics- and genomics-related data visualization using Makie.jl
genetics genomics julia visualization makie bioinformatics cairomakie gwas phewas locuszoom colocalization fine-mapping qtl linkage julia-language data-science multi-ethnic v2f multivariate openmendel
Language:Julia 73
broadinstitute / pyro-cov
Pyro models of SARS-CoV-2 variants
sars-cov-2 genetics epidemiology
Language:Jupyter Notebook 72
statgen / locuszoom-standalone
Create regional association plots from GWAS or meta-analysis
genetics bioinformatics visualization
Language:Python 56
thierrygosselin / radiator
RADseq Data Exploration, Manipulation and Visualization using R
radseq radseq-data imputation genotype-likelihoods filter genetics missingness outliers genomics genomic-data-analysis genomics-visualization gbs genotyping-by-sequencing visualization outliers-detection heterozygosity paralogs artifacts-detection batch-effects normalization
Language:HTML 56
twoXes / awesome-structural-bioinformatics
Structural Bioinformatics is awesome. Throw your textbook in the garbage, light the garbage can on fire, and blend the ashes into your cold brew almond milk latte and read this.
molecular-informatics chemistry machine-learning deep-learning cheminformatics biology quantum-chemistry docking protein alphafold protein-structure-prediction awesome-list bioinformatics bioinformatics-pipeline bioinformatics-analysis proteomics genomics genetics genome-alignment protein-structure
Language:Python 55
j-andrews7 / Genotify
A minimal desktop app for easy and convenient gene annotation and lookup.
bioinformatics genetics gene-annotation desktop-application gene lookup protein-function
Language:JavaScript 54
nasa / GeneLab_Data_Processing
genetics pipeline genes genelab
Language:Jupyter Notebook 53
gtonkinhill / fastbaps
A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
bayesian hierarchical-clustering genetics
Language:R 52
biomarkers
rivas-lab / biomarkers
Genetics of blood and urine biomarkers in the UK Biobank
alanine-aminotransferase alt-ast creatinine egfr gwas genetics ldl cholesterol triglycerides ggt albumin glucose hba1c lpa testosterone shbg igf1 bilirubin biomarkers polygenic-risk-scores
Language:Jupyter Notebook 46
innit
micutio / innit
A roguelike game where you play a micro organism inside a larger organism!
innit game game-engine genetics dna roguelike-game roguelike roguelikedev micro-organisms microbes rust
Language:Rust 45
PopGen.jl
BioJulia / PopGen.jl
Population Genetics in Julia
fst genetics genomics microsatellites popgen snps structure
Language:Julia 44
tbates / umx
Making Structural Equation Modeling (SEM) in R quick & powerful
statistics psychology r sem structural-equation-modeling behavior-genetics twin-models cran umx tutorials openmx genetics
Language:R 43
rivas-lab / covid19
As a part of COVID-19 Host Genetics Initiative, we perform the following set of analyses to better understand the genetic basis of COVID-19 susceptibility and severity.
coronavirus covid-19 genetics abo-blood uk-biobank hla polygenic-risk-scores blood-group sars-cov-2
Language:Jupyter Notebook 42