Individual skill
nfcore-scrnaseq-wrapper
Wrapper skill for running nf-core/scrnaseq 4.1.0 upstream single-cell RNA-seq preprocessing from FASTQ with strict preflight, reproducibility outputs, and downstream handoff to ClawBio scRNA skills.
skills/nfcore-scrnaseq-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.
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Repository context
- Repository stars (not skill ratings)
- 1,176
- 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
- scrna Declared skill tag
- single-cell Declared skill tag
- nextflow Declared skill tag
- nf-core Declared skill tag
- fastq Declared skill tag
- 10x Declared skill tag
- h5ad Declared skill tag
- preprocessing Declared skill tag
- engineering Derived category
Declared tags are partial or unavailable.
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 · 24,274 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytesSKILL.mdcore · 54,549 bytes_isolated_imports.pyruns · 1,266 bytescommand_builder.pyruns · 1,849 bytesdemo/README.mddoc · 320 byteserrors.pyruns · 3,415 bytesexecutor.pyruns · 10,312 bytesnfcore_4_1_0_contract.pyruns · 13,062 bytesnfcore_scrnaseq_wrapper.pyruns · 50,865 bytesoutputs_parser.pyruns · 16,735 bytesparams_builder.pyruns · 12,009 bytespipeline_source.pyruns · 7,165 bytespreflight.pyruns · 66,735 bytesprovenance.pyruns · 14,707 bytesremap_paths.pyruns · 27,874 bytesreporting.pyruns · 13,537 bytesrepro_commands.pyruns · 12,843 bytesreproducibility/compatibility_policy.jsonasset · 2,066 bytesreproducibility/pinned_versions.jsonasset · 775 bytessamplesheet_builder.pyruns · 32,704 bytesschemas.pyruns · 5,878 bytestests/conftest.pyruns · 4,134 bytestests/test_audit_fixes.pyruns · 25,290 bytestests/test_audit_round2.pyruns · 26,940 bytestests/test_audit_round3.pyruns · 17,642 bytestests/test_audit_round4.pyruns · 12,356 bytestests/test_audit_round5.pyruns · 15,841 bytestests/test_bundle_portability.pyruns · 10,680 bytestests/test_cli_direct_invocation.pyruns · 1,474 bytestests/test_command_builder.pyruns · 4,197 bytestests/test_contract_generator.pyruns · 2,824 bytestests/test_error_codes.pyruns · 2,520 bytestests/test_executor.pyruns · 11,062 bytestests/test_nfcore_contract.pyruns · 5,143 bytestests/test_nfcore_scrnaseq_wrapper.pyruns · 22,693 bytestests/test_outputs_parser.pyruns · 14,747 bytestests/test_params_builder.pyruns · 17,061 bytestests/test_pipeline_source.pyruns · 6,785 bytestests/test_portability_remap_interpreter.pyruns · 1,666 bytestests/test_preflight.pyruns · 29,758 bytestests/test_provenance.pyruns · 9,147 bytestests/test_remap_paths.pyruns · 23,095 bytestests/test_reporting.pyruns · 13,257 bytestests/test_repro_commands.pyruns · 4,028 bytestests/test_resume_policy.pyruns · 8,387 bytestests/test_samplesheet_builder.pyruns · 17,456 bytes
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