name: bio-clip-seq-clip-alignment
description: Align CLIP-seq reads to the genome with crosslink site awareness. Use when mapping preprocessed CLIP reads for peak calling.
tool_type: cli
primary_tool: STAR
measurable_outcome: Execute skill workflow successfully with valid output within 15 minutes.
allowed-tools:
- read_file
- run_shell_command
Run npx skillmds@latest add freedomintelligence/bio-clip-seq-clip-alignment in your terminal (requires Node.js), paste this page's agent-chat prompt into Claude, Cursor, or any MCP-connected agent, or download the SKILL.md file and copy it into your agent's skills directory.
<!-- It is listed under Coding & Dev Tools on SkillMD.
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FreedomIntelligence (@freedomintelligence) published this skill. Their other Agent Skills are listed on their SkillMD profile.