Borrowing it
Nothing to install: this file belongs to 45ck/open-genome-agent. Take a copy, put it at the same path in your own repository, and replace the rules that are about this project with yours.
curl -O https://raw.githubusercontent.com/45ck/open-genome-agent/main/.agents/skills/generate-report/SKILL.mdgit clone --depth 1 https://github.com/45ck/open-genome-agentWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/45ck/open-genome-agent/generate-report)<a href="https://agentmods.dev/skills/45ck/open-genome-agent/generate-report"><img src="https://agentmods.dev/badge/skills/45ck/open-genome-agent/generate-report.svg" alt="Measured on agentmods" height="20"></a>What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00026 | $0.00257 |
| Opus 5 | $0.00013 | $0.00129 |
| Sonnet 5 | $0.00005 | $0.00051 |
| Haiku 4.5 | $0.00003 | $0.00026 |
Grade A, and why
generate-report scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 8d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
What it actually says
Generate report
Assemble structured findings and evidence into a human-readable report plus machine-readable index. Use after prioritization is finished.
When to use
- findings.json and evidence.jsonl exist
- a human-readable deliverable is required
Do not use when
- upstream analysis is still missing
Expected outputs
report.mdreport.htmlreport-index.json
Goal
Turn structured artifacts into a concise report with a clear evidence ladder.
Procedure
- Load the manifest, summary, findings, and evidence artifacts.
- Group findings by confidence and category.
- Put strong items first, then probabilistic items, then exploratory leads.
- End with limitations and required human review.
- Emit
report.md, optionalreport.html, and a machine-readable report index.
Guardrails
- Do not invent missing evidence.
- Do not hide ambiguity.
- If upstream artifacts are missing, stop and state which ones are missing.
References
See references/README.md for durable notes and scripts/ for deterministic helpers.
What ships with it
2 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 8d ago First seen · 43 lines · 26 tokens per session scan A 692956b76da6
generate-report is a skill published in the GitHub repository 45ck/open-genome-agent (4 stars, last pushed 2mo ago), licensed MIT. It adds 26 tokens to every session and 257 once invoked, about $0.0001 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-31.
Other skills, from other repositories
biomcp-research
Do biomedical literature and variant research with the BioMCP CLI, and file what you learn about the tool itself as issues in the biomcp repo.
genomics-cnv-calling
Load when calling CNV segments via CBS-style segmentation on a bin-level log2-ratio CSV from exome / WGS coverage — emits per-segment 5-class CN state (amplification / gain / neutral / loss / deepdeletion), per-chromosome summary, genome-fraction-altered. Skip when working with single-cell / spatial CNV (use…
genomics-phasing
Load when summarising a phased VCF (output of WhatsHap / SHAPEIT5 / Eagle2) — phased fraction of het variants, phase-block N50, PS-field parsing, pipe-delimited genotype detection. Skip when the input is unphased (run a phaser first); calling small variants (use genomics-variant-calling).
genomics-epigenomics
Load when summarising a peak file (BED / narrowPeak) from ATAC-seq / ChIP-seq / CUT&Tag — peak count, width distribution, per-chromosome counts, score statistics. Skip when calling peaks from BAM (run MACS / Genrich externally first); working with single-cell ATAC (use scatac-preprocessing).
genomics-qc
Load when running pre-alignment FASTQ quality control — Phred quality scores, Q20/Q30 rates, GC / N content, read-length distribution, adapter-contamination detection. Skip when working with already-aligned BAMs (use genomics-alignment); peak / variant files are the input (use the relevant downstream skill).
genomics-sv-detection
Load when summarising structural variants from an SV VCF (DEL / DUP / INV / TRA) — BND-notation parsing, size classification, per-type counts. Skip when working with small SNVs / indels (use genomics-variant-calling); calling SVs from BAM (run Manta / Delly / Sniffles first).