Loading homepage
Use when working with angsd — ANGSD — Analysis of Next Generation Sequencing
Use with AI
Install the MCP server or CLI to instantly fetch ANGSD documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/angsd
Use when working with bigsnpr — an R package for analysis of massive
2 shared topics • 1 shared operation
Bracken (Bayesian Reestimation of Abundance with KrakEN) — statistical method for computing species-level abundance estimates from Kraken/Kraken2/KrakenUniq taxonomic classifications. Redistributes re
2 shared topics • 1 shared operation
CNVpytor — Python tool for copy number variation (CNV) detection from whole-genome sequencing (WGS) BAM/CRAM files. Analyzes read depth signals with adjustable bin sizes, calls deletions and duplicati
2 shared topics • 1 shared operation
SHAPEIT4/5 — statistical haplotype phasing for SNP array and whole-genome sequencing data. SHAPEIT5 is the current production version, providing phasing of common variants (MAF >= 0.1%) via phase_comm
2 shared topics • 1 shared operation
Stacks is a software pipeline for building loci from short-read sequencing data (RAD-seq, GBS, ddRAD, 2b-RAD) for population genomics and phylogeography. Supports de novo and reference-guided assembly
2 shared topics • 1 shared operation