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nf-core/atacseq — Nextflow pipeline for ATAC-seq (Assay for Transposase-Accessible Chromatin with sequencing) data analysis. Handles paired- or single-end reads through adapter trimming (Trim Galore),
Use with AI
Install the MCP server or CLI to instantly fetch nf-coreatacseq documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/nf-coreatacseq
KneadData — quality control and host decontamination tool for metagenomic
2 shared topics • 2 shared operations
nf-core/chipseq — Nextflow pipeline for comprehensive ChIP-seq analysis from raw reads through peak calling and differential analysis. Automates adapter trimming, multi-aligner support (BWA, Bowtie2,
2 shared topics • 2 shared operations
nf-core/methylseq — community-curated Nextflow pipeline for whole-genome bisulfite sequencing (WGBS) and reduced representation bisulfite sequencing (RRBS) data analysis. Handles adapter trimming (Tri
2 shared topics • 2 shared operations
FastQC — universal quality control tool for high-throughput sequencing data. Performs modular analysis of FASTQ and BAM files, generating per-base quality scores, GC content distribution, adapter cont
2 shared topics • 1 shared operation
IGV (Integrative Genomics Viewer) — high-performance Java desktop application for interactive visualization and exploration of genomic data. Supports BAM/CRAM alignments, VCF variants, BED/GFF annotat
2 shared topics • 1 shared operation