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| # | Skill | Repository | Stars | Used in | Tokens | Auto-check | Licence | Updated |
|---|---|---|---|---|---|---|---|---|
| 1 | Analyzes chemical libraries by scaffold using Bemis-Murcko scaffolds, generic frameworks, cyclic skeletons, matched molecular pair (MMP) analysis via mmpdb, R-group decomposition, Free-Wilson… | GPTomics/ | 1.2k | 2 repos | ~4k | Automated safety check: Pass | MIT | 1 mo ago |
| 2 | Loads, converts, and manipulates Hi-C contact matrices in cooler format (.cool/.mcool/.scool) and Juicer .hic, using cooler (Python + CLI), hic2cool, and hictk. | GPTomics/ | 1.2k | 1 repo | ~4.8k | Automated safety check: Pass | MIT | 1 mo ago |
| 3 | Builds reproducible Quarto reports, presentations, and websites across R, Python, and Julia, with correct engine selection, cache-vs-freeze semantics, native cross-references, parameters, and… | GPTomics/ | 1.2k | 1 repo | ~2.4k | Automated safety check: Pass | MIT | 1 mo ago |
| 4 | Create and manipulate Seq, MutableSeq, and SeqRecord objects using Biopython. | GPTomics/ | 1.2k | 1 repo | ~2.5k | Automated safety check: Pass | MIT | 1 mo ago |
| 5 | Authors bioinformatics pipelines in WDL (Workflow Description Language) run by Cromwell or miniwdl, targeting the GATK/Broad and Terra/AnVIL/BioData Catalyst cloud ecosystem, with tasks, workflows… | GPTomics/ | 1.2k | 1 repo | ~3.5k | Automated safety check: Pass | MIT | 1 mo ago |
| 6 | Orders and orients assembled contigs into chromosome-scale scaffolds from long-range linking data, inserting N-gap spacers (adds no sequence). | GPTomics/ | 1.2k | 1 repo | ~5.6k | Automated safety check: Pass | MIT | 1 mo ago |
