Loading homepage
schmutzi — Bayesian contamination estimation and decontamination for ancient mitochondrial DNA. Estimates the fraction of modern human contamination in ancient DNA libraries by comparing observed sequ
Use with AI
Install the MCP server or CLI to instantly fetch schmutzi documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/schmutzi
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
Use when working with goleft — a collection of Go-based tools for fast
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
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),
2 shared topics • 1 shared operation
Qualimap — platform-independent quality control tool for next-generation sequencing alignment data. Provides BAM QC (coverage, insert size, GC content, mapping quality), RNA-seq QC (gene body coverage
2 shared topics • 1 shared operation