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1. scFair scFair Public

    scFair: a seamless Python alternative for scanpy.pp.highly_variable_genes that fixes two silent failures in single-cell HVG selection — no more guessing gene count (auto-sized n_top_genes) and no …

   Python 5

2. scATrans scATrans Public

   A Python package for mechanism-aware single-cell differential analysis. It partitions DE genes into transcription-driven versus stabilization-driven classes using nascent (unspliced) RNA residuals.…

   Python 4

3. AmbiDose AmbiDose Public

   AmbiDose is a conservative, cell-aware Python toolkit for ambient RNA correction in droplet scRNA-seq. It estimates sample-specific ambient profiles and per-cell doses, protects native cell-type si…

   Python 2

4. paperfig-illustrator paperfig-illustrator Public

   PaperFig for Illustrator: a CEP panel for scientific figure bitmaps. Tone and channels, uint16 preview via Fiji/Bio-Formats, vector scale bars, crop and inset, µm/px calibration, and batch apply. G…

   JavaScript 3

5. TxNova TxNova Public

   A Python package with a Rust core that recovers unannotated spliced residual loci from bulk RNA-seq BAMs. CIGAR N junctions recurring in 2+ cohort samples and absent from the annotation become locu…

   Python 2