ACAD-UofA / Guide-to-manipulating-PLINK-EIG-and-VCF-filesLinks
A guide to manipulating genotypic data across the common formats: VCF, EIGENSTRAT and PLINK (PACKEDPED) files. Includes how to convert between formats, merge datasets or subset by individuals in each of the formats.
☆23Updated 2 years ago
Alternatives and similar repositories for Guide-to-manipulating-PLINK-EIG-and-VCF-files
Users that are interested in Guide-to-manipulating-PLINK-EIG-and-VCF-files are comparing it to the libraries listed below
Sorting:
- Scripts and notes on how to analyse ancient DNA genotype data to understand population structure☆39Updated 2 years ago
- Perform GWAS with gemma in a simple pipeline☆27Updated 6 months ago
- Pipeline to perform the allele-specific expression analysis (based on the work by Skelly et al. 2011)☆12Updated 5 months ago
- scripts used for processing and analyzing data in the article.☆13Updated 6 years ago
- Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data☆18Updated 7 months ago
- Analysis of genotyping and next-generation sequencing data in medical and population genetics☆23Updated 3 years ago
- a bucket of bioinformatics scripts☆13Updated last week
- Identify and annotate TE-mediated insertions in long-read sequence data☆46Updated 4 months ago
- A set of workflows written in Nextflow for Genome Annotation.☆45Updated last year
- Course in population genomics at BiRC☆12Updated 6 months ago
- toolkit to process gtf files☆17Updated 3 years ago
- Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.☆29Updated 6 years ago
- R Package to Estimate Variable Recombination Rates using Population Genetic Data☆42Updated 6 years ago
- Scripts to convert between file formats for various analyses☆16Updated 6 months ago
- Transposable Elements MOvement detection using LOng reads☆25Updated 3 months ago
- Tutorial on using popular tools for learning about population history☆52Updated 7 years ago
- Haplotype and population structure inference using neural networks.☆27Updated 11 months ago
- Upscaling SV detection to a multi-population level.☆22Updated 3 months ago
- Repository for pipeline code☆26Updated last year
- Pipeline for Phylostratigraphy☆13Updated 3 years ago
- Here we present a method to plot the outputs of RFMIX version 2☆28Updated last year
- Evolutionary Transcriptomics with R☆49Updated this week
- LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files☆35Updated 4 months ago
- BLINK: A Package for Next Level of Genome Wide Association Studies with Both Individuals and Markers in Millions☆38Updated 7 months ago
- Reliable Association INference By Optimizing Weights with R (R package for SNP-set GWAS and multi-kernel mixed model)☆24Updated last month
- Genome-wide scan for balancing selection using beta statistic☆29Updated 2 years ago
- De novo annotation of young retrotransposons☆48Updated 3 years ago
- Pipeline for structural variation detection in cohorts☆52Updated 4 years ago
- A graph-based pipeline used to call/genotype snvs/indels/SVs from NGS data☆16Updated 2 months ago
- Working on cotton resequencing☆11Updated 5 years ago