Individual skill
samtools-bam-processor
BAM/SAM file manipulation skill for sorting, indexing, filtering, and extracting alignment data
library/specializations/domains/science/bioinformatics/skills/samtools-bam-processor/SKILL.md
Source commit feb68abe397acc14f32b34984975c48fedba2b33
What was checked
- Matches the observed repository HEAD
- Yes
- Scanner rules are current
- Yes
- Repository scan complete
- No
- Skill scan complete
- No
- Observed behavior
- Network or broad shell
- Last checked
- Nov 9, 2026
These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.
Install this skill
Choose an agent in your Stack or copy a command below. Commands fetch the pinned commit and copy only this skill directory. Existing destinations are refused. Copying a command does not install anything.
An install command is unavailable: current rules, complete repository and skill scans, an eligible behavior level and a permitted license are required.
Repository context
- Repository stars (not skill ratings)
- 1,903
- Repository last updated
- Nov 1, 2026
- License
- MIT
Observed agent integration: No specific integration evidence. Standard SKILL.md installation does not imply verified compatibility.
- agent-orchestration Repository topic
- agent-skills Repository topic
- agentic-ai Repository topic
- agentic-workflow Repository topic
- ai-automation Repository topic
- babysitter Repository topic
- claude-code Repository topic
- claude-skills Repository topic
- trustworthy-ai Repository topic
- vibe-coding Repository topic
- sequence-analysis Declared skill tag
- bam Declared skill tag
- sam Declared skill tag
- alignment Declared skill tag
- data Derived category
Files and excerpt
File metadata and permitted, redacted excerpts come from the recorded scan. Source links are pinned to that commit.
Browse files
SKILL.mdcore · 1,588 bytes
Read excerpt
# Samtools BAM Processor Skill
## Purpose
Provide BAM/SAM file manipulation capabilities for sorting, indexing, filtering, and extracting alignment data.
## Capabilities
- BAM sorting and indexing
- Duplicate marking and removal
- Alignment statistics generation
- Region extraction and filtering
- Read group management
- Format conversion (SAM/BAM/CRAM)
## Usage Guidelines