population-genomics
There are 10 repositories under population-genomics topic.
- Language:R 258
- Language:Python 58
- Language:C++ 46
- Language:R 37
- Language:C++ 35
gtonkinhill / rhierbaps
rhierbaps: R implementation of hierBAPS
Language:R 34- Language:Python 29
mfumagalli / ImaGene
Estimation of population genetic parameters using deep learning
Language:Jupyter Notebook 28EricArcher / strataG
strataG is a toolkit for haploid sequence and multilocus genetic data summaries, and analyses of population structure.
Language:HTML 26alexlancaster / pypop
PyPop: Python for Population Genomics
Language:Python 25- Language:HTML 24
Crazzy-Rabbit / Script-in-PopGenetics
群体遗传学分析中用到的script和skill等
Language:Python 20- Language:C 20
SchriderLab / Timesweeper
Python package for detecting positive selective sweeps using time-series genomics sampling data.
Language:Python 19- Language:Python 18
sanjaynagi / rna-seq-pop
Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
Language:Jupyter Notebook 18alexkychen / assignPOP
Population Assignment using Genetic, Non-genetic or Integrated Data in a Machine-learning Framework. Methods in Ecology and Evolution. 2018;9:439–446.
Language:R 16xin-huang / dadi-cli
Automated and distributed population genetic model inference from allele frequency spectra
Language:Python 16- Language:C 15
- Language:C++ 14
- Language:R 12
wurmlab / genomicscourse
For QMUL's Genome Bioinformatics MSc module BIO721P & SIB's Spring school in bioinfo & population genomics
Language:HTML 12rtfcoimbra / Coimbra-et-al-2021_CurrBiol
Code used to analyse WGS data of giraffe in Coimbra et al. 2021
Language:Shell 11BiomedSciAI / Geno4SD
An python omics data toolkit for the analysis across biological scales
Language:Jupyter Notebook 10- Language:C++ 10
jdalapicolla / LanGen_pipeline_version2
Scripts in R for Landscape Genomics Analyses v.2
Language:R 10sunyatin / ASCEND
Method to estimate the age and intensity of recent bottlenecks/founder events, using genotype data and a recombination map.
Language:Python 9V-Z / course-r-mol-data
R is nowadays probably the most powerful tool for calculations of all kinds. There are plenty of modules available for work with molecular data. Those will be introduced during the course.
Language:TeX 9zjnolen / PopGLen
Bioinformatics pipeline to process whole genome resequencing data and perform genotype likelihood based population genomic analyses using ANGSD and related softwares. Flexible to datasets that combine high/low coverage and historical/fresh samples.
Language:Python 9albertopessia / Kpax3.jl
Bayesian bi-clustering of categorical data
Language:Julia 8zhuochenbioinfo / PopGen
Small scripts for population genetics analysis
Language:Perl 8KiranJavkar / PRAWNS
PRAWNS: A fast and scalable bioinformatics tool that generates an efficient pan-genome representation of closely related whole genomes to provide a concise list of genomic features
population-genomicscomparative-genomicswhole-genome-genotypingpan-genome-analysisbioinformaticsgenomicscomputational-biologyantimicrobial-resistancebacterial-gwasantibiotic-resistancewhole-genome-sequencingwhole-genome-alignmentgenome-analysisparallel-programmingassociation-studiesmicrobial-genomicsLanguage:C++ 7- Language:Python 6
janawold1 / PhD_thesis
Presented here are the tools and strategies implemented for short-read SV discovery (Chapter 3), a population genomics study (Chapter 4) and genome graph construction (Chapter 5).
Language:Shell 5- Language:TeX 5
