genetics

There are 73 repositories under genetics topic.

hail
hail-is / hail
Cloud-native genomic dataframes and batch computing
genetics vcf genomics gwas bioinformatics python software hail
Language:Python 940
MareesAT / GWA_tutorial
A comprehensive tutorial about GWAS and PRS
bioinformatics genetics genomics gwas plink population-stratification population-structure prs qc r unix
768
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 710
wilkox / gggenes
➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2
genetics ggplot2 r
Language:R 469
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 305
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 193
tskit-dev / msprime
Simulate genealogical trees and genomic sequence data using population genetic models
python coalescent trees tskit genetics genomics simulation msprime
Language:Python 168
DecodeGenetics / graphtyper
Population-scale genotyping using pangenome graphs
genotype variants graph genetics decode-genetics bioinformatics
Language:C++ 160
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 144
zhanxw / rvtests
Rare variant test software for next generation sequencing data
next-generation-sequencing ngs association-analysis gwas rare-variant meta-analysis genotype skat c-plus-plus variants umich genetics kernel vcf-files
Language:C++ 126
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
labsquare / cutevariant
A standalone and free application to explore genetics variations from VCF file
genetics variant-call-format vcf gui pyside2 python3
Language:Python 93
cx0 / chatGPT-for-genetics
Chat with Open Targets genetics database leveraging text-to-graphQL capabilities of OpenAI Codex.
chatgpt chatgpt-api genetics open-targets graphql text-to-graphql openai openai-api
Language:Python 90
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 88
ODiogoSilva / TriFusion
Streamlining phylogenomic data gathering, processing and visualization
python phylogenetics phylogenomic genetics orthologues gui kivy 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
hardingnj / xpclr
Code to compute the XP-CLR statistic to infer natural selection
selection popgen genetics bioinformatics
Language:Python 84
RCollins13 / HumanIdiogramLibrary
Resource of human chromosome schematics & images
genetics genomics genomics-visualization data-visualization resources
84
broadinstitute / pyro-cov
Pyro models of SARS-CoV-2 variants
sars-cov-2 genetics epidemiology
Language:Jupyter Notebook 74
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
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 57
nasa / GeneLab_Data_Processing
genetics pipeline genes genelab
Language:Jupyter Notebook 56
statgen / locuszoom-standalone
Create regional association plots from GWAS or meta-analysis
genetics bioinformatics visualization
Language:Python 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 56
j-andrews7 / Genotify
A minimal desktop app for easy and convenient gene annotation and lookup.
bioinformatics desktop-application gene gene-annotation genetics lookup protein-function
Language:JavaScript 54
gtonkinhill / fastbaps
A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
bayesian hierarchical-clustering genetics
Language:R 53
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 47
innit
micutio / innit
A roguelike game where you play a micro organism inside a larger organism!
dna game game-engine genetics innit micro-organisms microbes roguelike roguelike-game roguelikedev rust
Language:Rust 45
PopGen.jl
BioJulia / PopGen.jl
Population Genetics in Julia
genetics genomics snps microsatellites fst structure popgen
Language:Julia 43
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