A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - for sampled individuals, and for pool sequencing.
A library for working with phylogenetic and population genetic data.
Toolkit for Population Genetic Statistics from Pool-Sequenced Samples, e.g., in Evolve and Resequence experiments
Adapted chi-squared and CMH test to evolve and resequenced data. Includes drift and pool sequencing variance in the tests
Quantitative and population genetics analyses of populations, pools, half-sib/full-sib families, and polyploids
A tool to convert poolseq VCF to allele frequencies.
This repository collects my project for the Applied Genomics course. It includes the presentation on the chromosome-scale reference genome of the Alpine marmot, integrating multi-omics to study hibernation and high-altitude adaptation. Teaching materials (notes, transcripts, slides) used during the course are also provided for study purposes.
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