bio-alignment-filtering

Name: bio-alignment-filtering
Author: GPTomics

Filter alignments by flags, mapping quality, and regions using samtools view and pysam. Use when extracting specific reads, removing low-quality alignments, or subsetting to target regions.

View Source bioinformatics

maintainer

GPTomics

Updated 2/13/2026

Stars

471

Forks

quick start

Installation and usage

Filter alignments by flags, mapping quality, and regions using samtools view and pysam. Use when extracting specific reads, removing low-quality alignments, or subsetting to target regions.

Installation

$ install --globalskills.sh

Usage

Once installed, you can use this skill by running the following command in your terminal:

skills use bio-alignment-filtering