bio-sashimi-plots
Creates sashimi plots showing RNA-seq read coverage and splice junction counts using ggsashimi or rmats2sashimiplot. Visualizes differential splicing events with grouped samples and junction read support. Use when visualizing specific splicing events or validating differential splicing results.
npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-sashimi-plots --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: ggplot2 3.5+, pandas 2.2+ Before using code patterns, verify installed versions match. If versions differ: - Python: `pip show <package>` then `help(module.function)` to check signatures - 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. # Sashimi Plot Visualization Create sashimi plots to visualize splicing events with read coverage and junction counts. ## ggsashimi Usage **Goal:** Generate sashimi plots showing read coverage and junction counts for a genomic region. **Approach:** Define sample groupings in a TSV file, then run ggsashimi with genomic coordinates and annotation. **"Visualize a splicing event"** -> Plot RNA-seq coverage tracks with splice junction arcs grouped by condition. - Python/CLI: `ggsashimi.py` (ggsashimi) - CLI: `rmats2sashimiplot` (rMATS-specific) ```python import subprocess import pandas as pd # Create sample grouping file (TSV: path, group, color) groups = pd.DataFrame({ 'bam': ['sample1.bam', 'sample2.bam', 'sample3.bam', 'sampl
- Version Compatibility
- ggsashimi Usage
- Batch Plotting Significant Events
- rmats2sashimiplot
- Customization Options
- Best Practices
- Troubleshooting
- Related Skills
For rMATS output specifically rmats2sashimiplot \
What does the bio-sashimi-plots skill do?
Creates sashimi plots showing RNA-seq read coverage and splice junction counts using ggsashimi or rmats2sashimiplot. Visualizes differential splicing events with grouped samples and junction read support. Use when visualizing specific splicing events or validating differential splicing results.
How do I install it?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill bio-sashimi-plots --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 FreedomIntelligence/OpenClaw-Medical-Skills, a repository with 2,909 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.