bedtools-genomic-intervals
CommunityManipulate genomic intervals with speed and precision.
Education & Research#bioinformatics#genomics#coverage#annotation#interval operations#bedtools#genomic analysis
Authorjaechang-hits
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill provides a powerful command-line toolkit for performing essential operations on genomic interval files (BED, BAM, GFF, VCF), streamlining complex genomic analyses.
Core Features & Use Cases
- Interval Operations: Intersect, merge, subtract, complement, and find overlaps between genomic regions.
- Coverage Analysis: Calculate read depth and coverage breadth over specified intervals.
- Sequence Extraction: Extract FASTA sequences corresponding to genomic regions.
- Nearest Feature Annotation: Identify the closest genomic features to a given set of intervals.
- Use Case: Annotate ChIP-seq peaks by finding overlapping genes and calculating their distance to the nearest Transcription Start Site (TSS).
Quick Start
Use bedtools to find all peaks in 'peaks.bed' that overlap with any regions in 'genes.bed'.
Dependency Matrix
Required Modules
None requiredComponents
references
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: bedtools-genomic-intervals Download link: https://github.com/jaechang-hits/SciAgent-Skills/archive/main.zip#bedtools-genomic-intervals Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
Agent Skills Search Helper
Install a tiny helper to your Agent, search and equip skill from 223,000+ vetted skills library on demand.