RADseq Data Exploration, Manipulation and Visualization using R

Support Vector Structural Variation Genotyper

stackr: an R package to run stacks software pipeline

Genotype Calling with Uncertainty from Sequencing Data in Polyploids 🍌🍓🥔🍠🥝

Population assignment analysis using R

A collection of WDL bioinformatic workflows to benchmark markers coming from different pipelines using linkage map quality as a diagnosis.

A simple python library to identify the most likely strain from the population

A clinical decision-support system to identify pharmacogenomics profiles based on subjects genotype of five core genes. The paper has been published in the Journal of Personalized Medicine.

An advanced genotyping pipeline by next-generation sequencing (NGS) technology

A fast and accurate tool for genotyping haploid individuals (such as SARS-CoV-2)

pipeline to perform gbs and genetic fitness analysis

🕊 This repository is associated with the manuscript Pacheco et al. (2020).

Tutorial for Genotyping by RNA Sequencing (GBRS), which quantifies transcripts via RNASeq and genotypes the samples using SNPs in transcripts.

desining block alignment geneotyper tags based on the whole genome alignment or gene alignment for phylogenomics

Wrapper scripts for TASSEL (Trait Analysis by aSSociation, Evolution and Linkage) and UNEAK (Universal Network Enabled Analysis Kit) v3.0 Genotyping by Sequencing (GBS) analysis pipelines

Nextflow pipeline for SNPmatch (https://github.com/Gregor-Mendel-Institute/SNPmatch.git)

CODEHOP-mediated genotyping of HIV-1

Repo containing all scripts associated with Mahoenui giant wētā population genomic analysis from GBS data