Haplo- and Diplotype Star Allele matcher for Drug Dosage Guidelines

This program leverages zero recombination clusters and their relative positions on a linkage group to impute phases for missing data with high fidelity.

SNP pipeline using Snakemake for the Weisrock Lab's Tiger Salamander project.

Scripts to automate the phasing with several tools

Collection of several small tools. These tools stay here temporarily and may move to other major repositories as they evolve.

Proteogenomics database-generation tool for protein haplotypes and variants

Long sequencing reads classifier

Tools for data conversion and results visualization for fineRADstructure (http://cichlid.gurdon.cam.ac.uk/fineRADstructure.html)

A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, and for haplotype inference.

Split a BAM file by haplotype support

Polyploid micro-haplotype assembly using Markov chain Monte Carlo simulation.

Intersect multiple VCF files with haplotype awareness

An algorithm for recovering haplotypes from metagenomes

A python parser to simplify and build the VCF (Variant Call Format).

ClairS - a deep-learning method for long-read somatic small variant calling