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    35 repositories

    • scrapper

      Public
      R bindings to C++ code for single-cell analysis
      R
      •
      Other
      •0•8•5•0•Updated Apr 24, 2026Apr 24, 2026

    • umappp

      Public
      C++ port of the UMAP algorithm
      C++
      •
      BSD 2-Clause "Simplified" License
      •17•77•12•0•Updated Apr 22, 2026Apr 22, 2026

    • scran_pca

      Public
      Various flavors of principal components analysis
      C++
      •
      MIT License
      •1•1•0•0•Updated Apr 16, 2026Apr 16, 2026

    • irlba

      Public
      A C++ port of the IRLBA algorithm, based on the C code in the R package.
      C++
      •
      MIT License
      •4•17•3•1•Updated Apr 16, 2026Apr 16, 2026

    • scran_aggregate

      Public
      Aggregate expression values across groups of cells
      C++
      •
      MIT License
      •0•1•1•0•Updated Apr 10, 2026Apr 10, 2026

    • scran_norm

      Public
      Normalize and log-transform count matrices
      C++
      •
      MIT License
      •0•0•0•0•Updated Apr 9, 2026Apr 9, 2026

    • scran_markers

      Public
      Marker detection from single-cell expression data
      C++
      •
      MIT License
      •0•1•2•0•Updated Apr 8, 2026Apr 8, 2026

    • topicks

      Public
      Pick top genes for downstream analyses.
      C++
      •
      MIT License
      •0•2•0•0•Updated Apr 7, 2026Apr 7, 2026

    • scran_qc

      Public
      Compute simple quality control metrics for each cell
      C++
      •
      MIT License
      •0•0•1•0•Updated Mar 26, 2026Mar 26, 2026

    • scran_blocks

      Public
      Blocking utilities for libscran
      C++
      •
      MIT License
      •0•0•0•0•Updated Mar 3, 2026Mar 3, 2026

    • mnncorrect

      Public
      C++ implementation of the MNN correction algorithm
      C++
      •
      MIT License
      •0•5•1•0•Updated Feb 27, 2026Feb 27, 2026

    • WeightedLowess

      Public
      A standalone C++ implementation of limma::weightedLowess.
      C++
      •
      MIT License
      •4•7•1•0•Updated Feb 27, 2026Feb 27, 2026

    • scran_variances

      Public
      Model per-gene variances in log-expression data
      C++
      •
      MIT License
      •0•0•0•0•Updated Feb 27, 2026Feb 27, 2026

    • qdtsne

      Public
      Quick-and-dirty t-SNE in C++
      C++
      •
      MIT License
      •3•11•1•0•Updated Feb 27, 2026Feb 27, 2026

    • kmeans

      Public
      K-means clustering in C++
      C++
      •
      MIT License
      •4•7•0•0•Updated Feb 21, 2026Feb 21, 2026

    • partisub

      Public
      Subsampling within partitions
      C++
      •
      MIT License
      •0•0•0•0•Updated Feb 20, 2026Feb 20, 2026

    • nenesub

      Public
      Subsampling based on nearest neighbors
      C++
      •
      MIT License
      •0•0•0•0•Updated Feb 20, 2026Feb 20, 2026

    • scrapbook

      Public
      Book for the scrapper package
      TeX
      •
      Other
      •0•0•0•0•Updated Feb 17, 2026Feb 17, 2026

    • kmeans_tatami

      Public
      Wrapping tatami for k-means clustering
      C++
      •
      MIT License
      •0•0•0•0•Updated Jan 20, 2026Jan 20, 2026

    • factorize

      Public
      Create factors from categorical variables
      C++
      •
      MIT License
      •0•0•0•0•Updated Jan 17, 2026Jan 17, 2026

    • irlba_tatami

      Public
      Wrapping tatami for IRLBA
      C++
      •
      MIT License
      •0•0•0•0•Updated Jan 15, 2026Jan 15, 2026

    • scranpy

      Public
      Single-cell data analysis, from C++ to Python
      Python
      •
      MIT License
      •0•9•3•1•Updated Jan 7, 2026Jan 7, 2026

    • Rigraphlib

      Public
      Prebuilt igraph static library for Bioconductor packages
      C
      •1•1•1•0•Updated Dec 26, 2025Dec 26, 2025

    • scrapple

      Public archive
      User-friendly wrappers for single-cell analysis
      R
      •
      Other
      •0•0•0•0•Updated Dec 26, 2025Dec 26, 2025

    • clrm1

      Public
      A slightly improved method for ADT normalization
      R
      •
      MIT License
      •0•0•0•0•Updated Dec 17, 2025Dec 17, 2025

    • scran_tests

      Public
      Test utilities for libscran
      C++
      •
      MIT License
      •0•0•0•0•Updated Dec 1, 2025Dec 1, 2025

    • scran_graph_cluster

      Public
      Graph-based clustering for single-cell data
      C++
      •
      MIT License
      •0•0•0•0•Updated Nov 28, 2025Nov 28, 2025

    • gsdecon

      Public
      C++ port of the GSDecon algorithm
      C++
      •
      MIT License
      •0•0•0•0•Updated Nov 10, 2025Nov 10, 2025

    • mumosa

      Public
      Multi-modal single-cell analyses
      C++
      •
      MIT License
      •0•1•0•0•Updated Oct 27, 2025Oct 27, 2025

    • phyper

      Public
      Hypergeometric distribution tail calculations
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 4, 2025Sep 4, 2025
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