Syntax highlighting for computational biology

The powerful `awk` script to calculate pi, Dxy and Fst in polyploid VCF files with mixed-ploidy groups support

A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)

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.

A Nextflow variant normalization pipeline based on vt and bcftools

A collection of scripts for filtering annotated variant call format files

Variant annotation and filtration server ALAPY Genome Explorer

Scripts used on a cluster that demonstrate vcf file manipulation and preparation.

GBS workflow using dDocent. This was designed to process GBS data from SEACONNECT project.

A Bioinformatics pipeline to process Raw reads to VCF files in Bash

Bash scripts for fastq to vcf pipeline, written for USyd Artemis HPC.

convert genotype array output into annotated IBD segments

Variant discovery pipeline

Calling SNPs using TASSEL GBS V2 pipeline for ponderosa pine using the reference genome of loblolly pine

A bash script based pipeline to analyze Rad-seq data to get SNPs.

VCF's Supervisor Services / VKS Demo

Built around the vcf2tsv software. Make a tsv from a vcf for the excel lovers in your life.

Multi-class classification of drug resistance in MTB clinical isolates

Modify KASP assay calls to a VCF format