bam-to-fragment-file-conversion
byholobiomicslab· 58 skills
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Use when when you have coordinate-sorted BAM files from single-cell ATAC-seq experiments (e.g., 10X Genomics scATAC-seq) and need to generate a compressed fragment file for efficient downstream analysis. Use this step before matrix generation, clustering, or peak calling in SnapATAC2.
How to install bam-to-fragment-file-conversion?
holobiomicslab/asb-skill-collections/bam-to-fragment-file-conversion
$npx -y skills add holobiomicslab/asb-skill-collections --skill bam-to-fragment-file-conversionInstalls into the current project.
›Prefer a prompt? Paste this to your agent
Run `npx skills use "https://github.com/holobiomicslab/asb-skill-collections" --skill "holobiomicslab/asb-skill-collections/bam-to-fragment-file-conversion"` and follow the generated skill instructions now. Read its complete output, redirecting it to a temporary file first if necessary. Resolve relative paths from the supporting-files directory it provides.
Use the skills in "https://github.com/holobiomicslab/asb-skill-collections" that are relevant to the current task. Run `npx skills add "https://github.com/holobiomicslab/asb-skill-collections"` and select the relevant skills, then follow their instructions.
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