adding vllm batch inference support#23
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RichardZhu52 wants to merge 2 commits intomims-harvard:mainfrom
Open
adding vllm batch inference support#23RichardZhu52 wants to merge 2 commits intomims-harvard:mainfrom
RichardZhu52 wants to merge 2 commits intomims-harvard:mainfrom
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Mar 29, 2026
Section A additions: - Mass spectrometry (mzML) and flow cytometry (FCS) - Neuroimaging (NIfTI, DICOM) - Phylogenetics (Newick, Nexus) and systems biology (SBML) - Loom format for legacy single-cell data Section B additions (4 new categories): - #21 Protein Structure Download (RCSB PDB, AlphaFold, CATH) - #22 Clinical Genomics (ClinVar bulk, CIViC GraphQL, ClinGen) - #23 Single-Cell Portals (cellxgene Census, ARCHS4) - #24 Toxicology (CTD, EPA CompTox) Section C fixes: - Removed 6 sources that ARE in ToolUniverse (ENCODE, COSMIC, etc.) - Added clarifying note about find_tools() for 2300+ tools - Added FlowRepository and SynBioHub Now: 24 API patterns, 9 format categories, 14 restricted sources (598 lines)
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