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Use when processing environmental DNA (eDNA) multilocus metabarcode data with the Anacapa Toolkit. Covers sequence QC and ASV parsing with DADA2, taxonomy assignment with Bowtie 2 plus BLCA, CRUX refe
Use with AI
Install the MCP server or CLI to instantly fetch Anacapa documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/anacapa
nf-core/viralrecon — Nextflow pipeline for viral genome reconstruction and analysis from sequencing data. Supports Illumina and Oxford Nanopore reads for SARS-CoV-2, influenza, and other viral genomes
3 shared topics • 1 shared operation
CNVkit -- Python toolkit for detecting copy number variants (CNVs) from targeted DNA sequencing data (hybrid capture, amplicon) and whole-genome sequencing (WGS). Leverages both on-target and off-targ
3 shared topics
CRISPResso2 — Python tool for quantifying CRISPR genome editing outcomes from amplicon sequencing data. Analyzes NHEJ (insertions, deletions), HDR, and mixed repair outcomes. Supports single amplicon
3 shared topics
VarScan2 -- Java-based variant caller for somatic and germline SNV/indel detection, copy number analysis, and LOH detection from samtools mpileup output. Supports tumor-normal paired somatic calling,
3 shared topics
VirSorter2 is a multi-classifier pipeline for identifying DNA and RNA viral sequences from metagenomic and genomic assemblies. It supports dsDNA phage, ssDNA, RNA, NCLDV, and lavidaviridae groups, out
3 shared topics