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An open API service indexing awesome lists of open source software.

Projects in Awesome Lists tagged with genetics

A curated list of projects in awesome lists tagged with genetics .

https://github.com/hail-is/hail

Cloud-native genomic dataframes and batch computing

bioinformatics genetics genomics gwas hail python software vcf

Last synced: 13 May 2025

https://github.com/wilkox/gggenes

➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2

genetics ggplot2 r

Last synced: 04 Apr 2025

https://github.com/sgkit-dev/sgkit

Scalable genetics toolkit

genetics gwas popgen pydata statgen statistical-genetics

Last synced: 06 Apr 2026

https://github.com/tskit-dev/msprime

Simulate genealogical trees and genomic sequence data using population genetic models

coalescent genetics genomics msprime python simulation trees tskit

Last synced: 26 Jan 2026

https://github.com/DecodeGenetics/graphtyper

Population-scale genotyping using pangenome graphs

bioinformatics decode-genetics genetics genotype graph variants

Last synced: 10 May 2025

https://github.com/molgenis/molgenis

MOLGENIS - for scientific data: management, exploration, integration and analysis.

biobank bioinformatics catalogue freemarker genetics java javascript lifescience molgenis

Last synced: 05 Apr 2025

https://github.com/labsquare/cutevariant

A standalone and free application to explore genetics variations from VCF file

genetics gui pyside2 python3 variant-call-format vcf

Last synced: 07 Apr 2025

https://nvelden.github.io/geneviewer/

An R package designed for drawing gene arrow maps

genetics r

Last synced: 03 Dec 2025

https://github.com/odiogosilva/trifusion

Streamlining phylogenomic data gathering, processing and visualization

genetics gui kivy orthologues phylogenetics phylogenomic python visualization

Last synced: 11 Jun 2025

https://github.com/broadinstitute/pyro-cov

Pyro models of SARS-CoV-2 variants

epidemiology genetics sars-cov-2

Last synced: 12 Oct 2025

https://github.com/nvelden/geneviewer

An R package designed for drawing gene arrow maps

genetics r

Last synced: 01 May 2025

https://github.com/snap-stanford/kgwas

KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph

ai functional-genomics genetics knowledge-graph

Last synced: 23 Jul 2025

https://github.com/statgen/locuszoom-standalone

Create regional association plots from GWAS or meta-analysis

bioinformatics genetics visualization

Last synced: 26 Jan 2026

https://github.com/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

Last synced: 20 Jul 2025

https://github.com/varfish-org/varfish-server

VarFish: comprehensive DNA variant analysis for diagnostics and research

genetics varfish variant-filtration variant-prioritization vcf

Last synced: 10 Mar 2026

https://github.com/biojulia/popgen.jl

Population Genetics in Julia

fst genetics genomics microsatellites popgen snps structure

Last synced: 15 Apr 2025

https://github.com/snap-stanford/KGWAS

KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph

ai functional-genomics genetics knowledge-graph

Last synced: 18 Oct 2025

https://github.com/gorpipe/gor

GORpipe is a tool based on a genomic ordered relational architecture and allows analysis of large sets of genomic and phenotypic tabular data using declarative query language, in a parallel execution engine.

bioinformatics genetics genomics gor gorpipe gwas java open-source python scala software spark vcf

Last synced: 02 Apr 2026

https://github.com/tbates/umx

Making Structural Equation Modeling (SEM) in R quick & powerful

behavior-genetics cran genetics openmx psychology r sem statistics structural-equation-modeling tutorials twin-models umx

Last synced: 24 Oct 2025

https://github.com/markziemann/dee2

Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data

bioinformatics data-mining genetics genomics rna-expression rna-seq transcriptomics

Last synced: 18 Feb 2026

https://github.com/harmslab/epistasis

A Python API for estimating statistical high-order epistasis in genotype-phenotype maps.

epistasis evolution genetics genotype-phenotype-maps high-order modeling nonlinear python

Last synced: 14 Jan 2026

https://github.com/quantgen/bgdata

A Suite of Packages for Analysis of Big Genomic Data

cran genetics genomics gwas r r-pkg

Last synced: 28 Aug 2025

https://github.com/nasa/GeneLab-Training

A repository for GeneLab Training documentation.

education genes genetics nasa outreach pipeline training training-materials

Last synced: 26 Jun 2025

https://github.com/phenopolis/phenopolis

An Open Platform for Harmonisation & Analysis of Sequencing & Phenotype Data

database genetics phenotype server

Last synced: 14 Jul 2025

https://github.com/smehringer/sviper

Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.

correction decode-genetics genetics long-reads seqan structural-variation

Last synced: 21 Mar 2025

https://github.com/molpopgen/fwdpy11

Forward-time simulation in Python using fwdpp

genetics genomics population-genetics simulation tree-sequences

Last synced: 31 Aug 2025

https://github.com/pgxcentre/genipe

Genome-wide imputation pipeline

bioinformatics genetics genomics

Last synced: 28 Jan 2026

https://github.com/mancusolab/sushie

Software to perform multi-ancestry SNP fine-mapping on molecular data

bayesian-inference eqtl fine-mapping genetics gwas jax pqtl python susie variational-inference

Last synced: 07 Mar 2026

https://github.com/datasnakes/orthoevolution

An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵

bash bioinformatics biology biosql blast data-science ftp genetics ncbi orthologs orthologues orthology orthology-inference pbs phylogenetics python qsub sequence-alignment sge shell

Last synced: 15 Apr 2025

https://github.com/brandonsaldan/codex

A minimal genetic data explorer that processes all genetic information locally.

bioinformatics dna genetics genome-analysis snpedia

Last synced: 27 Dec 2025

https://github.com/cdcgov/tostadas

🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission

azure bioinformatics conda docker genbank genetics liftoff metadata mpox ncbi nextflow nf-tower pipeline python rna-seq scicomp sequencing singularity sra vadr

Last synced: 15 Apr 2025

https://github.com/stuntspt/structure_threader

A wrapper program to parallelize and automate runs of "Structure", "fastStructure" and "MavericK".

clustering doi genetics parallelize pypi python science structure structure-threader wrapper

Last synced: 21 Mar 2025

https://github.com/molgenis/vip

Variant Interpretation Pipeline

genetics pipeline variant-interpretation

Last synced: 10 Apr 2025

https://github.com/opencog/agi-bio

Genomic and Proteomic data exploration and pattern mining

artificial-intelligence genetic-analysis genetics genomics protein-sequences proteomics

Last synced: 01 Mar 2026

https://github.com/slowkow/allelefrequencies

📂 HLA allele frequencies in tab-delimited format, downloaded from AFND.

bioinformatics genetics hla hla-database

Last synced: 14 Apr 2025

https://github.com/germinateplatform/germinate-vue

Germinate is an open source plant database infrastructure and application programming platform on which complex data from genetic resource collections can be stored, queried and visualized.

chemical-compounds climate-data database genetics genotypes germinate mysql pedigree phenotypes plant-genetic-resources vuejs website

Last synced: 09 Feb 2026

https://github.com/quantgen/bedmatrix

A matrix-like wrapper around PLINK .bed files

bed cran genetics genomics plink plink2 r r-pkg

Last synced: 06 May 2025

https://github.com/pseudogene/lava-dna

LAVA (LAMP Assay Versatile Analysis) is an extendable open-source Loop-mediated isothermal AMPlification (LAMP)

bioperl genetics lamp perl-scripts primer

Last synced: 12 Aug 2025

https://github.com/lemieuxl/pyplink

Python module to read binary Plink files.

bioinformatics genetics genomics

Last synced: 28 Jan 2026

https://github.com/varfish-org/hgvs-rs

A port of biocommons/hgvs to the Rust programming language

genetics varfish variant-filtration variant-prioritization vcf

Last synced: 11 Apr 2026

https://github.com/slowkow/hlabud

🐶 hlabud: HLA genotype analysis in R

bioinformatics genetics hla hla-database immunoinformatics immunology

Last synced: 23 Aug 2025

https://github.com/mklarqvist/libflagstats

Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.

avx2 avx512 bioinformatics genetics popcnt popcount pospopcnt simd sse4

Last synced: 01 Apr 2026

https://github.com/aritra90/terapca

TeraPCA is a multithreaded C++ software suite based on Intel's MKL library (or any other BLAS and/or LAPACK distribution). TeraPCA features no dependencies to external libraries and combines the robustness of subspace iteration with the power of randomization.

big-data bioinformatics genetics genomics multithreading principal-component-analysis statistical-analysis

Last synced: 18 Oct 2025

https://github.com/harmslab/gpmap

A Python API for managing genotype-phenotype map data

evolution genetics genotype-phenotype-maps networkx

Last synced: 01 Feb 2026

https://github.com/alexiajm/legit

An R package for the Latent Environmental & Genetic InTeraction (LEGIT) model

environment genetic-variants genetics glm gxe gxe-modelling interactions latent-variable-models latent-variables r

Last synced: 10 Apr 2025

https://github.com/theislab/cellink

Scalable framework for integrating single-cell omics with genetic data using AnnData.

anndata genetics single-cell

Last synced: 13 Feb 2026

https://github.com/longevity-genie/biothings-mcp

MCP (Model Context Protocol) server for biothings

bioinformatics biothings genetic-variants genetics mcp-server

Last synced: 12 Aug 2025

https://github.com/huwenboshi/s-ldxr

Stratified squared trans-ethnic genetic correlation

genetics gwas

Last synced: 18 Jan 2026

https://github.com/smallnest/gofu

functional go with generic types

functional generic genetics golang

Last synced: 01 Sep 2025

https://github.com/pstawinski/pygenebe

PyGeneBe: A Python client seamlessly integrating with the GeneBe platform, offering efficient annotation of genetic variants through its API, while supporting pandas, VCF file formats, and HGVS parsing

acmg-guidelines bioinformatics clinvar genetics gnomad hgvs python variant-annotations vep-annotation

Last synced: 14 Jan 2026

https://github.com/gagniuc/visual-sequence-alignment-in-vb6

This highly visual and responsive VB6 application is an implementation of the global sequence alignment algorithm. It allows the modification of the alignment parameters (match, mismatch, gap), and it shows the pairwise alignment as well as the score matrix in real time.

dna dna-sequences gap genetics genomics global heatmap match matrix mismatch proteomics rna score sequence-alignment traceback visualization

Last synced: 06 Mar 2026

https://github.com/samuelnicaise/variantconvert

A customizable genetic variants file format converter.

bioinformatics conversion converter file genetics ngs tsv variants vcf

Last synced: 30 Apr 2025

https://github.com/tomwhite/t1d-genetic-risk-score

Code for calculating an individual's T1D genetic risk score from their 23andMe data

23andme diabetes genetics genomics t1d

Last synced: 29 Oct 2025

https://github.com/reiver/evolution-and-behavior-reading-list

A list of what was read and discussed, over the years, for the Evolution And Behavior reading group.

anthropology archaeology behavioral-sciences biology books evolution genetics neuroscience papers psychology psychometrics reading-list

Last synced: 08 Feb 2026

https://github.com/warioddly/heritage

The family tree of the Kyrgyz people (Генеалогическое древо кыргызов)🌳

binary-tree family-tree genetics javascript js nextjs react reactjs tree typescript vercel web website

Last synced: 15 Apr 2025

https://github.com/louisaslett/kalis

kalis: High Performance Li & Stephens Local Ancestry Inference

genetics genomics hpc-applications r

Last synced: 12 Apr 2025

https://github.com/khaledashrafh/ga-knapsackizer

This repository contains a C++ program that solves the Knapsack Problem using a Genetic Algorithm. The Knapsack Problem is a classic optimization problem where we aim to maximize the total value of items to be packed in a knapsack, given the knapsack's weight capacity and a set of items with their respective weights and values.

crossover crossover-operator genetic-algorithm genetic-algorithms genetics knapsack knapsack-ga knapsack-genetic knapsack-problem mutation mutation-operator soft-computing soft-computing-course

Last synced: 17 Oct 2025

https://github.com/biometris/statgenhtp

See https://biometris.github.io/statgenHTP for a full description

cran genetics high-troughput-phenotyping r-package

Last synced: 25 Feb 2026

https://github.com/neurogenomics/rare_disease_celltyping

Code, data and results associated with the "Rare diseases cell-typing" project.

cell-type-deconvolution enrichment-analysis genetics rare-disease

Last synced: 27 Feb 2026

https://github.com/hdg204/Rdna-nexus

Functions to analyse UK Biobank genetic data directly from DNA Nexus' RStudio Workbench

biobank bioinformatics dna genetics nexus r risk scores snp uk

Last synced: 09 Apr 2025

https://github.com/broadinstitute/funpipe

A python3 library for building best practice fungal genomic analysis pipeline

bioinformatics-pipeline fungal genetics genomics infectious-disease python-library python3

Last synced: 09 Aug 2025

https://github.com/piyalkarum/rcnv

An R package for detecting copy number variants from SNPs data

cnv-analysis copy-number-variation cran gene-duplication genetics genomics landscape-genetics r snps

Last synced: 22 Oct 2025

https://github.com/gregorybchris/typogenetics

From Douglas Hofstadter's "Gödel, Escher, Bach" (1979)

biology dna douglas genetics hofstadter replication rna science strands typogenetics

Last synced: 30 Aug 2025

https://github.com/darkfanxing/genetic-algorithm-with-pid-control-system

A PID Control System with Genetic Algorithm

genetics pid-controller python397

Last synced: 14 Apr 2025

https://github.com/vjcitn/biochail

Using hail via Basilisk

bioconductor genetics hail r

Last synced: 08 Sep 2025

https://github.com/romunov/wolfexplorer

Explorer designed to visualize complex multi-year multi-specimen data. Case study of Slovenian wolves.

animals cartography genetics mcp parentage r samples shiny shinydashboard wolves

Last synced: 01 Apr 2026

https://github.com/gvegayon/phylo-software

List of phylogenetic software. Original from Prof. Felsenstein's website https://evolution.gs.washington.edu/phylip/software.html

archive felsenstein genetics phylogenetics software

Last synced: 01 Feb 2026

https://github.com/gphmorin/genlib.jl

A pure Julia port of R's GENLIB genetics and genealogical library

bioinformatics genealogy genetics julia julia-language pedigree

Last synced: 10 Apr 2025

https://github.com/gagniuc/promkappa-1.0-makes-objective-digital-stains

PromKappa 1.0 is a complete application made in Visual Basic 6.0 (VB6) that generates Objective Digital Stains (aka DNA patterns).

bioinformatics digital dna genes genetics genomics objective ods promoters stains vb6

Last synced: 10 Mar 2026

https://github.com/greenelab/model-free-data

Case-control genetics datasets evolved to be epistatic

biodata-mining dataset epistasis genetics moore-lab notebook open-data simulation snps supplement

Last synced: 18 Feb 2026

https://github.com/pgxcentre/geneparse

Clean interface to parse genotype files

bioinformatics genetics genomics

Last synced: 28 Jan 2026

https://github.com/lemieuxl/pybgen

Python module to process BGEN files as dosage data

bioinformatics genetics genomics

Last synced: 28 Jan 2026

https://github.com/anshumansinha3301/bitfusion_dynamics_gene_project

Project Based on Gene expression and concept related to genetics made using python(Matplotlib)

data-science genetics matplotlib

Last synced: 10 Jul 2025

https://github.com/pdimens/popgensims.jl

Create population genetics simulations

breeding crosses genetics mating popgen simulation

Last synced: 15 Apr 2025

https://github.com/dangreco/jean

Computational biology utility library for Rust featuring sequence alignment, genome annotation, and I/O of biological files

bioinformatics biology computational-biology dna genes genetics protein rna

Last synced: 14 Apr 2025

https://github.com/hughjonesd/why-natural-selection

Code for the paper "Human capital mediates natural selection in contemporary humans"

economics fertility genetics natural-selection

Last synced: 22 Apr 2025

https://github.com/scholl-lab/vcf-filtering

A collection of scripts for filtering annotated variant call format files

bcftools genetics kidney-disease rare-disease rare-variant-analysis snpeff snpsift vcf

Last synced: 18 Feb 2026

https://github.com/xijiang/genematrix.jl

Matrix being used in breeding and genetics

breeding genetics matrix

Last synced: 18 Feb 2026

https://github.com/senresearch/bulklmm.jl

Linear mixed model genome scans for many traits

bioinformatics genetics lmm

Last synced: 09 Oct 2025

https://github.com/legaultmarc/grstools

A bioinformatics framework for the construction and evaluation of genetic risk scores

bioinformatics genetic-risk-score genetics grs

Last synced: 28 Jan 2026

https://github.com/gagniuc/promkappa-2.0-makes-objective-digital-stains

PromKappa V2.0 generates Objective Digital Stains (also called DNA patterns in the past). This is the second version of the application and it is made in Visual Basic 6.0 (VB6).

bioinformatics content digital genetics genomics information objective ods stains vb6

Last synced: 08 Mar 2026