Skip to content

Popular repositories Loading

  1. pagoda2 pagoda2 Public

    R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets

    JavaScript 252 47

  2. conos conos Public

    R package for the joint analysis of multiple single-cell RNA-seq datasets

    R 224 39

  3. numbat numbat Public

    Haplotype-aware CNV analysis from single-cell RNA-seq, ATAC-seq, and multiome

    R 214 33

  4. Baysor Baysor Public

    Bayesian Segmentation of Spatial Transcriptomics Data

    Julia 204 40

  5. dropEst dropEst Public

    Pipeline for initial analysis of droplet-based single-cell RNA-seq data

    C++ 95 42

  6. scITD scITD Public

    Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition

    R 64 4

Repositories

Showing 10 of 38 repositories
  • Baysor Public

    Bayesian Segmentation of Spatial Transcriptomics Data

    kharchenkolab/Baysor’s past year of commit activity
    Julia 204 MIT 40 38 1 Updated Apr 22, 2026
  • leidenAlg Public

    Implements the Leiden algorithm via an R interface

    kharchenkolab/leidenAlg’s past year of commit activity
    C 12 4 1 (1 issue needs help) 0 Updated Apr 16, 2026
  • clone2vec Public

    Repository for the clone2vec python package

    kharchenkolab/clone2vec’s past year of commit activity
    Python 15 0 0 0 Updated Apr 10, 2026
  • sccore Public

    Core utilities for single-cell RNA-seq

    kharchenkolab/sccore’s past year of commit activity
    R 13 3 1 0 Updated Apr 6, 2026
  • conos Public

    R package for the joint analysis of multiple single-cell RNA-seq datasets

    kharchenkolab/conos’s past year of commit activity
    R 224 GPL-3.0 39 8 (7 issues need help) 1 Updated Apr 1, 2026
  • pagoda2 Public

    R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets

    kharchenkolab/pagoda2’s past year of commit activity
    JavaScript 252 47 2 (1 issue needs help) 0 Updated Apr 1, 2026
  • N2R Public

    R extensions to N2 implementing approximate nearest neighbor search methods

    kharchenkolab/N2R’s past year of commit activity
    C++ 10 3 1 (1 issue needs help) 0 Updated Mar 31, 2026
  • cacoa Public

    Single-cell Case Control Analysis

    kharchenkolab/cacoa’s past year of commit activity
    R 56 12 10 1 Updated Feb 26, 2026
  • scistreer Public

    R/Rcpp implementation of the ScisTree algorithm

    kharchenkolab/scistreer’s past year of commit activity
    R 7 GPL-3.0 3 0 0 Updated Feb 4, 2026
  • numbat Public

    Haplotype-aware CNV analysis from single-cell RNA-seq, ATAC-seq, and multiome

    kharchenkolab/numbat’s past year of commit activity
    R 214 33 80 1 Updated Feb 4, 2026

People

This organization has no public members. You must be a member to see who’s a part of this organization.

Top languages

Loading…

Most used topics

Loading…