RADseq Data Exploration, Manipulation and Visualization using R
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Updated
May 15, 2024 - HTML
RADseq Data Exploration, Manipulation and Visualization using R
Population Assignment using Genetic, Non-genetic or Integrated Data in a Machine-learning Framework. Methods in Ecology and Evolution. 2018;9:439–446.
pipeline for optimizing the clustering threshold in ipyrad RADseq assemblies
Assembly, analysis and visualization of ddRAD seq data for the plant genus Muscari.
Random scripts, mostly for dealing with RADseq data and DNA sequence alignments
Set of scripts to process RAD-Seq HTS data on computing grids like MetaCentrum.
This repository contains a number of bash and R scripts used in the processing of RADSeq data on the VSC supercomputer.
Analyse RAD-tags and generate the Genetic Map with GWAS
stackr: an R package to run stacks software pipeline
Population assignment analysis using R
grur: an R package tailored for RADseq data imputations
R script employed in the manuscript 'Genomic signatures of clonality in the deep water kelp Laminaria rodriguezii' to compute the frequency of pairwise genetic distances among individuals.
R script employed in the manuscript 'Genomic signatures of clonality in the deep water kelp Laminaria rodriguezii' to compute the distribution of FIS across loci into discrete classes
Tools for data conversion and results visualization for fineRADstructure (http://cichlid.gurdon.cam.ac.uk/fineRADstructure.html)
Genomics pipeline to reproduce the analysis from Matthey-Doret et al., 2019, Genome Biology and Evolution
GBS workflow using dDocent. This was designed to process GBS data from SEACONNECT project.
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