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Research & Science · AnnData · GPTomics/bioSkills
Skills
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| # | Skill | Repository | Stars | Used in | Tokens | Auto-check | Licence | Updated |
|---|---|---|---|---|---|---|---|---|
| 1 | Reads, inspects, and writes Flow Cytometry Standard (FCS) files from conventional, spectral, and mass cytometry (CyTOF), and parses FlowJo/Cytobank/Diva workspaces. | GPTomics/ | 1.2k | 1 repo | ~2.5k | Automated safety check: Pass | MIT | 1 mo ago |
| 2 | Read, write, create, and convert single-cell objects across AnnData (Python), Seurat (R), and SingleCellExperiment (R). | GPTomics/ | 1.2k | 1 repo | ~3.3k | Automated safety check: Pass | MIT | 1 mo ago |
| 3 | Loads spatial transcriptomics data from Visium, Visium HD, Xenium, MERFISH/MERSCOPE, CosMx, Slide-seq/Curio, and Stereo-seq into AnnData or SpatialData using spatialdata-io and Squidpy. | GPTomics/ | 1.2k | 1 repo | ~4.2k | Automated safety check: Pass | MIT | 1 mo ago |
| 4 | Integrates single-cell paired TCR/BCR (10x VDJ, AIRR, dandelion, BD Rhapsody) with gene expression in an AnnData/MuData object using scirpy - chain-pairing QC, clonotype definition, clonal… | GPTomics/ | 1.2k | 1 repo | ~4.4k | Automated safety check: Pass | MIT | 1 mo ago |
| 5 | Imports gene expression count matrices from featureCounts, HTSeq, STAR ReadsPerGene, Salmon/kallisto via tximport or tximeta, RSEM, 10X Genomics MTX/H5, AnnData H5AD, and RDS. | GPTomics/ | 1.2k | 1 repo | ~6.6k | Automated safety check: Pass | MIT | 1 mo ago |
| 6 | Stores and operates on sparse expression matrices for single-cell and large bulk RNA-seq, covering dgCMatrix/dgRMatrix/dgTMatrix when-each-is-fast, the dgCMatrix (CSC, R) <- CSR (Python) implicit… | GPTomics/ | 1.2k | 1 repo | ~5.6k | Automated safety check: Pass | MIT | 1 mo ago |
