population-structure
There are 47 repositories under population-structure topic.
MareesAT/GWA_tutorial
A comprehensive tutorial about GWAS and PRS
royfrancis/pophelper
An R package to analyse and visualise admixture proportions from STRUCTURE, fastSTRUCTURE, TESS, ADMIXTURE etc.
Tom-Jenkins/mapmixture
R package and web app for spatial visualisation of admixture on a projected map
gtonkinhill/rhierbaps
rhierbaps: R implementation of hierBAPS
EricArcher/strataG
strataG is a toolkit for haploid sequence and multilocus genetic data summaries, and analyses of population structure.
QTCAT/qtcat
Quantitative Trait Cluster Association Test in R
Tom-Jenkins/admixture_pie_chart_map_tutorial
Tutorial for visualising admixture on a map
esteinig/netviewr
Mutual nearest neighbor graphs for population structure inference and visualization :octopus:
msesia/knockoffgwas
A flexible tool for the multi-resolution localization of causal variants across the genome, accounting for population structure.
sa-lee/starmie
starmie: plotting and inference for population structure models :star2:
justincbagley/piranha
Scripts for file processing and analysis in phylogenetics and phylogeography
V-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.
ocbe-uio/rBAPS
R implementation of the BAPS software for Bayesian Analysis of Population Structure
royfrancis/pophelperShiny
Interactive interface for pophelper using shiny web framework.
solelena/PSReliP
An integrated pipeline for analysis and visualization of Population Structure and Relatedness based on genome-wide genetic variant data
annndruha/vk_community_distribution
vk.com community members sex and age distribution (population pyramid)
DarkEyes/ipADMIXTURE
A data clustering package based on admixture ratios (Q matrix) of population structure analysis.
PAMorin/TESS3r_SNPs
R-markdown script for geographic population genetic structure analysis with Tess3r
bguo068/posseleff_simulations
Nextflow pipeline to assess the impact of positive selection on Identity by Descent (IBD)-based inferences, utilizing population genetic simulations and true IBD inferences.
bonifazi/labradoR
An R Package To Read, Process, and Visualize Retriever's Output.
esohkevin/CamPopStruct
Fine-scale genetic structure in South Western Cameroon
MPB-mrcg/Pfalciparum_Mali_geo_temp_popgen
This study assessed the spatial genetic variation in P. falciparum populations in Mali
Zilong-Li/phaseless
Imputation and Admixture for lcWGS in one goal
aangush/Rice-GWAS
GWAS on rice RNA seq data, features use of statgenGWAS, and experimentation with different methods of pop. structure control
ahmedmoustafa/genetic-ancestry
Genetic Ancestry
bguo068/posseleff_empirical
Nextflow pipeline for analyzing empirical WGS data for the effect of positive selection on IBD-based inference
jgeofil/mycorrhiza-article-source
In this article, we introduce Mycorrhiza, a machine learning approach for the genotype assignment problem. Our algorithm makes use of phylogenetic networks to engineer features that encode the evolutionary relationships among samples.
katarinastuart/Sv1_StarlingGBS
Scripts and notes related to the manuscript: Stuart KC & Cardilini APA 2021 Signatures of selection in a recent invasion reveal adaptive divergence in a highly vagile invasive species. Molecular Ecology 30(6):1419-1434, doi.org/10.1111/mec.15601 † joint first author ‡ joint last author.
ksil91/PS-Oly-Larvae-Growth
Repository for paper looking at phenotypic differences among F1 and F2 oysters from 3 populations in Puget Sound, WA.
VahidHeidari/StrBEAM
Population Structured Bayesian Epistasis Association Mapping
cooperkoers/GeoFlux
GeoFlux: Simulating White Flight and Gentrification Using Stochastic Vector Models
hwittich/Cow_PCA
STAT488 - Multivariate Statistics final project at Loyola University Chicago
RoshniRanaDS27/Crowd_Funding_Data_Analysis_by_Excel
Crowdfunding Data Analysis
Tuks-ICMM/Population-Structure-Workflow
A Snakemake powered pipeline developed to perform population structure and admixture analysis given multiple Variant Call Format datasets. This has been developed in partial fulfilment of a MSc in Bioinformatics at the University of Pretoria by Graeme Ford.
AIHAgreda/helioseris_ddrad
Repository for "Hybridization and inbreeding affect the survival of a critically endangered coral"