Loading homepage
fqtools — fast FASTQ file manipulation suite written in C. Provides 16 subcommands for viewing, filtering, trimming, converting, and validating FASTQ files. Supports gzip-compressed and BAM input nati
Use with AI
Install the MCP server or CLI to instantly fetch fqtools documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/fqtools
Chopper — fast Rust-based quality, length, and GC content filtering and trimming tool for long-read sequencing data (Oxford Nanopore, PacBio) in FASTQ format. Successor to NanoFilt with multithreaded
1 shared topic • 2 shared operations
fastp — ultra-fast all-in-one FASTQ preprocessor for quality control, adapter trimming, quality filtering, per-read trimming, polyG/polyX removal, UMI processing, base correction, deduplication, and c
1 shared topic • 2 shared operations
NanoFilt — Python tool for filtering and trimming Oxford Nanopore long-read sequencing data in FASTQ format. Filters reads by minimum average quality score, minimum/maximum read length, and GC content
1 shared topic • 2 shared operations
nf-core/eager is a Nextflow pipeline for ancient DNA (aDNA) and palaeogenomics analysis. Handles adapter trimming, low-complexity filtering, read mapping with BWA-aln (optimal for short aDNA reads), d
1 shared topic • 2 shared operations
Porechop — adapter trimming and demultiplexing tool for Oxford Nanopore long-read sequencing data. Finds and removes adapters from read ends, splits chimeric reads containing internal adapters, and de
1 shared topic • 2 shared operations