bio-epitranscriptomics-modification-visualization
Create metagene plots and browser tracks for RNA modification data. Use when visualizing m6A distribution patterns around genomic features like stop codons.
npx skills add BioTender-max/awesome-bio-agent-skills --skill modification-visualization --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
## Version Compatibility Reference examples tested with: deepTools 3.5+ Before using code patterns, verify installed versions match. If versions differ: - R: `packageVersion('<pkg>')` then `?function_name` to verify parameters - CLI: `<tool> --version` then `<tool> --help` to confirm flags If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying. # Modification Visualization **"Visualize m6A distribution around stop codons"** → Create metagene plots and genome browser tracks showing RNA modification patterns relative to transcript landmarks (5'UTR, CDS, 3'UTR, stop codon). - R: `Guitar::GuitarPlot()` for metagene distribution plots - CLI: `deeptools computeMatrix` → `plotHeatmap` for modification heatmaps ## Metagene Plots with Guitar ```r library(Guitar) library(TxDb.Hsapiens.UCSC.hg38.knownGene) # Load m6A peaks peaks <- import('m6a_peaks.bed') # Create metagene plot # Shows distribution relative to transcript features GuitarPlot( peaks, txdb = TxDb.Hsapiens.UCSC.hg38.knownGene, saveToPDFprefix = 'm6a_metagene' ) ``` ## Custom Metagene with deepTools **Goal:** Create a metagene pr
- Version Compatibility
- Metagene Plots with Guitar
- Custom Metagene with deepTools
- Browser Tracks
- Heatmaps
- Related Skills
Create bigWig from IP/Input ratio bamCompare -b1 IP.bam -b2 Input.bam \ Metagene around stop codons computeMatrix scale-regions \ plotProfile -m matrix.gz -o metagene.pdf Create normalized bigWig for genome browser bamCoverage -b IP.bam \ Peak BED to bigBed bedToBigBed m6a_peaks.bed chrom.sizes m6a_peaks.bb
What does the bio-epitranscriptomics-modification-visualization skill do?
Create metagene plots and browser tracks for RNA modification data. Use when visualizing m6A distribution patterns around genomic features like stop codons.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill modification-visualization --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.