ngs-file-toolkit

Guides the agent through reading, filtering, and writing genomic files in Python with pysam, covering BAM and CRAM alignments, VCF and BCF variant calls, FASTA reference sequences, FASTQ reads, and indexed region queries. Walks through per-base coverage and pileup analysis, variant filtering and annotation, format conversion, and sequencing QC summaries. Use when the user works with sequencing data or asks about read depth, alignments, genotypes, reference alleles, or coordinates inside genomic files. Not for de novo assembly, bulk RNA expression analysis, or non-genomic data formats.

Version

v1.0.0

Size

15 KB

Updated

2026-10-06

Your client verifies the signature before reading. This explicit manual read is available on every plan. Free automatically loads five chosen skills; paid plans automatically load relevant skills across the library.