otrnda

otrnda's Stars

• BenevolentAI/funkea

  Perform functional enrichment analysis at scale.

  Language:Python5

• isinaltinkaya/vcfgl

  Genotype likelihood simulator for VCF/BCF files

  Language:C++81

• freeseek/score

  Tools to work with GWAS-VCF summary statistics files

  Language:C966

• fgvieira/ngsLD

  Calculation of pairwise Linkage Disequilibrium (LD) under a probabilistic framework

  Language:C++427

• bulik/ldsc

  LD Score Regression (LDSC)

  Language:Python624339

• rtfcoimbra/Coimbra-et-al-2021_CurrBiol

  Code used to analyse WGS data of giraffe in Coimbra et al. 2021

  Language:Shell106

• songlab-cal/gpn

  Genomic Pre-trained Network

  Language:Jupyter Notebook17722

• mmollina/viewpoly

  R package to visualize genetic maps and QTL analysis.

  Language:R43

• chrishah/MITObim

  MITObim - mitochondrial baiting and iterative mapping

  Language:Perl10734

• cpockrandt/genmap

  GenMap - Fast and Exact Computation of Genome Mappability

  Language:C++9416

• jlapaijmans/Consensify

  Consensify method for error reduction in ancient DNA pseudohaploidisation

  Language:C++41

• GenisGE/warthogscripts

  Language:R2

• whatshap/whatshap

  Read-based phasing of genomic variants, also called haplotype assembly

  Language:Python33038

• Rosemeis/pcangsd

  Framework for analyzing low depth NGS data in heterogeneous populations using PCA.

  Language:Python4611

• KHanghoj/leopardpaper

  Language:Jupyter Notebook91

• mfumagalli/ngsTools

  Programs to analyse NGS data for population genetics purposes

  Language:R16066

• odelaneau/GLIMPSE

  Low Coverage Calling of Genotypes

  Language:C++13626

• DessimozLab/read2tree

  a tool for inferring species tree from sequencing reads

  Language:Python14018

• nt246/lcwgs-guide-tutorial

  Language:R7235

• therkildsen-lab/genomic-data-analysis

  Pipelines for analyzing genomic or transcriptomic data

  Language:Shell138

• therkildsen-lab/lcwgs-simulation

  Language:Shell153

• mmatschiner/tutorials

  Tutorials on phylogenetic and phylogenomic inference

  Language:HTML347164

• thorekop/ABBA-Site-Clustering

  Language:Python3

• jfarek/xatlas

  Language:C++293

• vgteam/vg

  tools for working with genome variation graphs

  Language:C++1.1k193

• fritzsedlazeck/SURVIVOR

  Toolset for SV simulation, comparison and filtering

  Language:C++34546

• The-Eastern-Oyster-Genome-Project/2023_Eastern_Oyster_Haplotig_Masked_Genome

  Repository for Puritz et al. 2022 "A second unveiling: haplotig masking of existing genomic resources improves population-level inference"

  Language:Shell31

• GenomicsAotearoa/Kakapo

  Scripts and code for Kākāpō genomic data

  Language:Jupyter Notebook141

• tskit-dev/tskit

  Population-scale genomics

  Language:Python15170

• bodkan/demografr

  Fast and simple simulation-based population genetic inference in R

  Language:R261