Individual skill
biomaster-workflows
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skills/biomaster-workflows/SKILL.md
Source commit b1f9b6e3306f8d870e23b2023057bf730090036f
What was checked
- Matches the observed repository HEAD
- Yes
- Scanner rules are current
- Yes
- Repository scan complete
- No
- Skill scan complete
- No
- Observed behavior
- Network or broad shell
- Last checked
- Nov 9, 2026
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Repository context
- Repository stars (not skill ratings)
- 3,102
- Repository last updated
- Jul 21, 2026
- License
- Not available
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README.mddoc · 1,928 bytesSKILL.mdcore · 1,974 bytesrepo/.readthedocs.yamlasset · 174 bytesrepo/README.mddoc · 21,344 bytesrepo/agents/Biomaster.pyruns · 32,693 bytesrepo/agents/CheckAgent.pyruns · 11,001 bytesrepo/agents/Knowledge.pyruns · 16,854 bytesrepo/agents/ToolAgent.pyruns · 4,933 bytesrepo/agents/__init__.pyruns · 402 bytesrepo/agents/ollama.pyruns · 3,029 bytesrepo/agents/prompts.pyruns · 34,472 bytesrepo/agents/utils.pyruns · 1,336 bytesrepo/config.yamlasset · 1,718 bytesrepo/data/README.mddoc · 618 bytesrepo/data/TruSeq3-PE.faasset · 93 bytesrepo/doc/Plan_Knowledge.jsonasset · 110,119 bytesrepo/doc/Task_Knowledge.jsonasset · 145,739 bytesrepo/docs/Makefileruns · 638 bytesrepo/docs/make.batruns · 804 bytesrepo/docs/requirements.txtdoc · 24 bytesrepo/docs/source/conf.pyruns · 1,082 bytesrepo/docs/source/index.rstasset · 227 bytesrepo/docs/source/installation.rstasset · 515 bytesrepo/docs/source/introduction.rstasset · 2,719 bytesrepo/docs/source/other.rstasset · 263 bytesrepo/docs/source/rag.rstasset · 2,515 bytesrepo/docs/source/usage.rstasset · 3,210 bytesrepo/examples/WGS WES/example.pyruns · 1,551 bytesrepo/examples/single-cell/example.pyruns · 1,551 bytesrepo/output/001_DEBUG_Input_1.jsonasset · 18,992 bytesrepo/output/001_DEBUG_Input_2.jsonasset · 8,879 bytesrepo/output/001_DEBUG_Input_3.jsonasset · 9,813 bytesrepo/output/001_DEBUG_Input_4.jsonasset · 11,724 bytesrepo/output/001_DEBUG_Input_5.jsonasset · 17,083 bytesrepo/output/001_DEBUG_Output_1.jsonasset · 528 bytesrepo/output/001_DEBUG_Output_2.jsonasset · 431 bytesrepo/output/001_DEBUG_Output_3.jsonasset · 637 bytesrepo/output/001_DEBUG_Output_4.jsonasset · 789 bytesrepo/output/001_DEBUG_Output_5.jsonasset · 489 bytesrepo/output/001_PLAN.jsonasset · 3,511 bytesrepo/output/001_Step_1.shruns · 331 bytesrepo/output/001_Step_2.shruns · 277 bytesrepo/output/001_Step_3.shruns · 301 bytesrepo/output/001_Step_4.shruns · 578 bytesrepo/output/001_Step_5.shruns · 426 bytesrepo/output/003_DEBUG_Input_1.jsonasset · 6,801 bytesrepo/output/003_DEBUG_Input_2.jsonasset · 19,152 bytesrepo/output/003_DEBUG_Input_3.jsonasset · 26,884 bytesrepo/output/003_DEBUG_Input_4.jsonasset · 4,614 bytesrepo/output/003_DEBUG_Output_1.jsonasset · 1,041 bytesrepo/output/003_DEBUG_Output_2.jsonasset · 664 bytesrepo/output/003_DEBUG_Output_3.jsonasset · 1,636 bytesrepo/output/003_DEBUG_Output_4.jsonasset · 580 bytesrepo/output/003_PLAN.jsonasset · 3,428 bytesrepo/output/003_Step_1.shruns · 633 bytesrepo/output/003_Step_2.shruns · 391 bytesrepo/output/003_Step_3.shruns · 1,051 bytesrepo/output/003_Step_4.shruns · 320 bytesrepo/requirements.txtdoc · 2,840 bytesrepo/run.pyruns · 3,771 bytesrepo/run.shruns · 38 bytesrepo/runv.pyruns · 25,642 bytesrepo/scripts/alignment_stats.shruns · 40 bytesrepo/scripts/bam2fq.shruns · 67 bytesrepo/scripts/basecaller.shruns · 213 bytesrepo/scripts/dorado_sum.shruns · 71 bytesrepo/scripts/eventalign.shruns · 399 bytesrepo/scripts/filter.shruns · 93 bytesrepo/scripts/filtered_plot.shruns · 79 bytesrepo/scripts/host_removal.shruns · 97 bytesrepo/scripts/indexbam.shruns · 128 bytesrepo/scripts/map_fastq2_ref.shruns · 281 bytesrepo/scripts/methy_iden.shruns · 248 bytesrepo/scripts/quantififation.shruns · 75 bytesrepo/scripts/raw_plot.shruns · 76 bytesrepo/scripts/result_sum.shruns · 172 bytesrepo/scripts/run-add-hicnormvector-to-mcool.shruns · 208 bytesrepo/scripts/run-addfrag2pairs.shruns · 1,171 bytesrepo/scripts/run-bam2pairs.shruns · 73 bytesrepo/scripts/run-bwa-mem.shruns · 593 bytesrepo/scripts/run-cool2multirescool.shruns · 1,592 bytesrepo/scripts/run-cooler-balance.shruns · 241 bytesrepo/scripts/run-cooler.shruns · 461 bytesrepo/scripts/run-fastqc.shruns · 266 bytesrepo/scripts/run-juicebox-pre-addnorm.shruns · 254 bytesrepo/scripts/run-juicebox-pre.shruns · 2,979 bytesrepo/scripts/run-juicer.shruns · 1,124 bytesrepo/scripts/run-list.shruns · 24 bytesrepo/scripts/run-merge-pairs.shruns · 870 bytesrepo/scripts/run-pairs-patch.shruns · 218 bytesrepo/scripts/run-pairsam-filter.shruns · 1,261 bytesrepo/scripts/run-pairsam-markasdup.shruns · 714 bytesrepo/scripts/run-pairsam-merge.shruns · 784 bytesrepo/scripts/run-pairsam-parse-sort.shruns · 1,473 bytesrepo/scripts/run-pairsqc-merge.shruns · 429 bytesrepo/scripts/run-pairsqc-single.shruns · 453 bytesrepo/scripts/run-sort-bam.shruns · 136 bytesrepo/source/Biomaster.svgasset · 3,042 bytesrepo/source/UI.pngasset · 168,468 bytesrepo/source/wechat.jpgasset · 211,817 bytes
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