Individual skill
nfcore-rnaseq-wrapper
Wrapper skill for running nf-core/rnaseq bulk RNA-seq preprocessing from FASTQ or BAM inputs with strict preflight, reproducibility outputs, and downstream handoff to ClawBio bulk RNA-seq DE skills.
skills/nfcore-rnaseq-wrapper/SKILL.md
Source commit df61706c3e32fea21ad88f5b8a5189c895f9524d
What was checked
- Matches the observed repository HEAD
- Yes
- Scanner rules are current
- No
- Repository scan complete
- No
- Skill scan complete
- No
- Observed behavior
- Not checked yet
- Last checked
- Nov 8, 2026
These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.
Install this skill
Choose an agent in your Stack or copy a command below. Commands fetch the pinned commit and copy only this skill directory. Existing destinations are refused. Copying a command does not install anything.
An install command is unavailable: current rules, complete repository and skill scans, an eligible behavior level and a permitted license are required.
Repository context
- Repository stars (not skill ratings)
- 1,175
- Repository last updated
- Nov 8, 2026
- License
- NOASSERTION
Observed agent integration: No specific integration evidence. Standard SKILL.md installation does not imply verified compatibility.
- ai-agents Repository topic
- bioinformatics Repository topic
- equity Repository topic
- genomics Repository topic
- local-first Repository topic
- openclaw Repository topic
- population-genetics Repository topic
- reproducibility Repository topic
- rnaseq Declared skill tag
- bulk-rna-seq Declared skill tag
- nextflow Declared skill tag
- nf-core Declared skill tag
- fastq Declared skill tag
- preprocessing Declared skill tag
- counts Declared skill tag
- engineering Derived category
Files and excerpt
File metadata and permitted, redacted excerpts come from the recorded scan. Source links are pinned to that commit.
Browse files
CHANGELOG.mddoc · 24,535 bytesSKILL.mdcore · 36,010 bytesSKILL.mdcore · 36,010 bytesSKILL.mdcore · 36,010 bytesSKILL.mdcore · 36,010 bytesSKILL.mdcore · 36,010 bytesSKILL.mdcore · 36,010 bytes_isolated_imports.pyruns · 1,266 bytescommand_builder.pyruns · 3,023 bytesdemo/README.mddoc · 312 byteserrors.pyruns · 4,123 bytesexecutor.pyruns · 9,008 bytesnfcore_rnaseq_wrapper.pyruns · 73,708 bytesoutputs_parser.pyruns · 13,942 bytesparams_builder.pyruns · 13,659 bytespipeline_source.pyruns · 6,005 bytespreflight.pyruns · 85,016 bytesprovenance.pyruns · 15,291 bytesremap_paths.pyruns · 29,294 bytesreporting.pyruns · 26,351 bytesreproducibility/compatibility_policy.jsonasset · 1,453 bytesreproducibility/pinned_versions.jsonasset · 1,548 bytessamplesheet_builder.pyruns · 19,534 bytesschemas.pyruns · 5,747 bytestests/conftest.pyruns · 5,639 bytestests/test_audit_rnaseq_hardening.pyruns · 20,310 bytestests/test_bundle_portability.pyruns · 5,968 bytestests/test_command_builder.pyruns · 7,038 bytestests/test_drift_guards.pyruns · 6,123 bytestests/test_error_codes.pyruns · 5,765 bytestests/test_executor.pyruns · 12,944 bytestests/test_nfcore_rnaseq_wrapper.pyruns · 54,446 bytestests/test_outputs_parser.pyruns · 16,037 bytestests/test_params_builder.pyruns · 22,083 bytestests/test_pipeline_source.pyruns · 12,274 bytestests/test_portability_remap_interpreter.pyruns · 1,666 bytestests/test_preflight.pyruns · 78,558 bytestests/test_provenance.pyruns · 19,588 bytestests/test_remap_paths.pyruns · 31,367 bytestests/test_reporting.pyruns · 37,057 bytestests/test_samplesheet_builder.pyruns · 14,289 bytes
No licensed excerpt is available. You can inspect the pinned source.