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bio-longread-qc - Long-read sequencing quality control tool

Quality control for long-read sequencing data using NanoPlot, NanoStat, and chopper

Tags

Updated: 2026-03-21
long-read sequencingquality controlnanoporepacbiobioinformatics

Capabilities

generate read length distributionscreate quality score plotscalculate summary statisticsfilter reads by length

Typical Inputs

FASTQ filesBAM filessequencing summary files

Typical Outputs

QC reportsstatistics filesplot files

What this skill does

  • generate read length distributions
  • create quality score plots
  • calculate summary statistics
  • filter reads by length
  • filter reads by quality
  • trim adapters
  • generate QC reports
  • visualize read characteristics

Inputs

  • FASTQ files
  • BAM files
  • sequencing summary files
  • quality threshold values
  • length threshold values

Outputs

  • QC reports
  • statistics files
  • plot files
  • filtered FASTQ files
  • HTML reports

Requirements

  • BioPython 1.83+
  • numpy 1.26+
  • NanoPlot
  • NanoStat
  • chopper

Source

  • Spec: SKILL.md

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