AGAT

Use when working with Bandage-NG (BandageNG), the modernized genome assembly graph visualization tool. Covers loading GFA, FASTG, and Trinity assembly graphs, rendering graph images from the command l

2 shared topics • 2 shared operations

CellGenIT tools from the Wellcome Sanger Institute Cellular Genetics Informatics team. Suite of Python utilities for single-cell genomics including sinto (fragment file generation from BAM), cellhint

2 shared topics • 2 shared operations

Use when working with MungeSumstats — a Bioconductor R package for standardizing and quality-controlling GWAS (genome-wide association study) summary statistics. Covers the full MungeSumstats pipeline

2 shared topics • 2 shared operations

PLINK 1.9/2 — high-performance command-line toolset for whole-genome association analysis, population stratification, identity-by-descent, linkage disequilibrium computation, and genotype data managem

2 shared topics • 2 shared operations

VCFtools — C++ toolkit for filtering, comparing, summarizing, converting, and manipulating VCF (Variant Call Format) and BCF files. Provides site and individual-level filtering, allele frequency calcu

2 shared topics • 2 shared operations