Repositories list

• deMULTIplex2

  Public
  deMULTIplex2: robust sample demultiplexing for scRNA-seq

  scrna-seqstatistical-modelsbioinformatics-algorithms+ 3

  scrna-seqstatistical-modelsbioinformatics-algorithmsdemultiplexingcell-hashingmulti-seq

  R

  •

  Creative Commons Attribution 4.0 International

  •33 forks•1919 stars•00 issues•00 pull requests•Updated Mar 12, 2026Mar 12, 2026

• Concord

  Public
  Python

  •

  MIT License

  •44 forks•4747 stars•22 issues•00 pull requests•Updated Jan 26, 2026Jan 26, 2026

• Concord_benchmark

  Public
  Benchmarking script for CONCORD.

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •00 forks•33 stars•00 issues•00 pull requests•Updated Oct 29, 2025Oct 29, 2025

• Concord_documentation

  Public
  Full documentation for Concord.

  HTML

  •11 fork•00 stars•00 issues•00 pull requests•Updated Sep 9, 2025Sep 9, 2025

• jdm-DECIPHER-2024

  Public
  Analysis code used for Rabadam et al. JCI Insight, 2024.

  R

  •11 fork•00 stars•00 issues•00 pull requests•Updated May 21, 2025May 21, 2025

• MULTI-ATAC

  Public
  Companion code for Conrad, et al.

  R

  •

  MIT License

  •11 fork•11 star•00 issues•00 pull requests•Updated Mar 6, 2025Mar 6, 2025

• GutSPV

  Public
  SPV model of intestinal villus clustering

  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jan 16, 2025Jan 16, 2025

• deMULTIplex2-benchmark

  Public
  Code for benchmarking the performance of demultiplex2.

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 11, 2023Oct 11, 2023

• BCC_Lattice_Model

  Public
  MATLAB

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 26, 2023Jun 26, 2023

• Organoid_Image_Processing

  Public
  MATLAB scripts for the processing and quantification of mammary organoid images

  MATLAB

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 26, 2023Jun 26, 2023

• deMULTIplex2_test_data

  Public
  test datasets for deMULTIplex2

  11 fork•11 star•00 issues•00 pull requests•Updated Jun 10, 2023Jun 10, 2023

• DoubletFinder

  Public
  R package for detecting doublets in single-cell RNA sequencing data

  R

  •127127 forks•00 stars•00 issues•00 pull requests•Updated May 10, 2022May 10, 2022

• MULTI-seq

  Public
  R implementation of MULTI-seq sample classification workflow

  R

  •1111 forks•11 star•00 issues•00 pull requests•Updated Dec 6, 2021Dec 6, 2021