Skip to content

Fastx Stats

Summary

Calculate aggregate statistics for sequences (min, max, mean, median, etc.).

Description

This command computes dataset-level summaries across sequences in one or more FASTA/FASTQ inputs, including count, length, and composition fields.

For per-sequence annotations instead of aggregates, use fastx-calc.

Usage

rolypoly fastx-stats [OPTIONS]

Options

  • -i, --input: Input file (fasta, fa, fna, faa) (type: PATH; required; default: Sentinel.UNSET)
  • -o, --output: Output path (use 'stdout' to print to console) (type: PATH; default: stdout)
  • --format: Output format for aggregate statistics (type: CHOICE; default: tsv)
  • -f, --fields: Fields to calculate statistics for (type: CHOICE; default: length, gc_content, n_count)
  • -c, --circular: Treat sequences as circular (rotate to minimal lexicographical form before analysis) (type: BOOLEAN; default: False)