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bio-sequence-statistics - Calculate sequence statistics using Biopython

Calculate sequence statistics such as N50, length distribution, and GC content using Biopython for dataset quality control and assembly comparison.

Tags

Updated: 2026-09-21
biopythonsequence-statisticsn50gc-contentfastaquality-control

Capabilities

Calculate N50 and length statisticsCalculate overall sequence GC contentAnalyze length distributions and percentilesCalculate nucleotide base composition

Typical Inputs

FASTA sequence filesAssembly files

Typical Outputs

Sequence summary statisticsCSV summary filesAssembly comparison tables

What this skill does

  • Calculate N50 and length statistics
  • Calculate overall sequence GC content
  • Analyze length distributions and percentiles
  • Calculate nucleotide base composition
  • Generate sequence QC summary reports
  • Compare metrics across multiple assemblies
  • Export summary statistics to CSV

Inputs

  • FASTA sequence files
  • Assembly files

Outputs

  • Sequence summary statistics
  • CSV summary files
  • Assembly comparison tables

Requirements

  • Python environment
  • BioPython 1.83+
  • samtools 1.19+

Source

  • Spec: SKILL.md

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