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    24 repositories

    • scran_markers

      Public
      Marker detection from single-cell expression data
      C++
      •
      MIT License
      •0•0•0•0•Updated Dec 27, 2024Dec 27, 2024

    • scrapper

      Public
      R bindings to C++ code for single-cell analysis
      R
      •
      Other
      •0•3•0•0•Updated Dec 27, 2024Dec 27, 2024

    • scran_graph_cluster

      Public
      Graph-based clustering for single-cell data
      C++
      •
      MIT License
      •0•0•0•0•Updated Dec 23, 2024Dec 23, 2024

    • scran_pca

      Public
      Various flavors of principal components analysis
      C++
      •
      MIT License
      •0•0•0•0•Updated Dec 21, 2024Dec 21, 2024

    • scran_variances

      Public
      Model per-gene variances in log-expression data
      C++
      •
      MIT License
      •0•0•0•0•Updated Dec 21, 2024Dec 21, 2024

    • clrm1

      Public
      A slightly improved method for ADT normalization
      R
      •
      MIT License
      •0•0•0•0•Updated Dec 20, 2024Dec 20, 2024

    • scran_norm

      Public
      Normalize and log-transform count matrices
      C++
      •
      MIT License
      •0•0•0•0•Updated Dec 20, 2024Dec 20, 2024

    • qdtsne

      Public
      Quick-and-dirty t-SNE in C++
      C++
      •
      MIT License
      •2•9•1•0•Updated Nov 22, 2024Nov 22, 2024

    • umappp

      Public
      C++ port of the UMAP algorithm
      C++
      •
      BSD 2-Clause "Simplified" License
      •15•46•5•0•Updated Nov 20, 2024Nov 20, 2024

    • scran_tests

      Public
      Test utilities for libscran
      C++
      •
      MIT License
      •0•0•0•0•Updated Nov 19, 2024Nov 19, 2024

    • scran_aggregate

      Public
      Aggregate expression values across groups of cells
      C++
      •
      MIT License
      •0•1•0•0•Updated Nov 14, 2024Nov 14, 2024

    • scran.chan

      Public
      A slimmed down version of scran, based on the C++ library of the same name.
      R
      •
      MIT License
      •0•9•0•0•Updated Oct 15, 2024Oct 15, 2024

    • libscran

      Public archive
      scran, but in C++.
      cpp
      C++
      •
      MIT License
      •0•7•2•0•Updated Oct 15, 2024Oct 15, 2024

    • scran-cli

      Public
      A command line interface to scran
      C++
      •
      MIT License
      •0•3•0•0•Updated Oct 14, 2024Oct 14, 2024

    • .github

      Public
      Organization profile
      MIT License
      •0•0•0•0•Updated Oct 14, 2024Oct 14, 2024

    • phyper

      Public
      Hypergeometric distribution tail calculations
      C++
      •
      MIT License
      •0•0•0•0•Updated Oct 7, 2024Oct 7, 2024

    • scran_qc

      Public
      Compute simple quality control metrics for each cell
      C++
      •
      MIT License
      •0•0•1•0•Updated Oct 4, 2024Oct 4, 2024

    • Rlibigraph

      Public
      Prebuilt igraph static library for Bioconductor packages
      R
      •0•1•0•0•Updated Sep 20, 2024Sep 20, 2024

    • mnncorrect

      Public
      C++ implementation of the MNN correction algorithm
      C++
      •
      MIT License
      •0•4•1•0•Updated Sep 2, 2024Sep 2, 2024

    • nenesub

      Public
      Subsampling based on nearest neighbors
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 2, 2024Sep 2, 2024

    • mumosa

      Public
      Multi-modal single-cell analyses
      C++
      •
      MIT License
      •0•1•0•0•Updated Sep 2, 2024Sep 2, 2024

    • gsdecon

      Public
      C++ port of the GSDecon algorithm
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 1, 2024Sep 1, 2024

    • scran_blocks

      Public
      Blocking utilities for libscran
      C++
      •
      MIT License
      •0•0•0•0•Updated Jul 18, 2024Jul 18, 2024

    • aggregate-demonstrator

      Public archive
      Demonstration of how to vendor aggregateAcrossCells
      C++
      •0•1•0•0•Updated Mar 25, 2024Mar 25, 2024