Alternatives and similar repositories for matchSCore2

Users that are interested in matchSCore2 are comparing it to the libraries listed below

• ati-lz / HCA_Benchmarking

  View on GitHub
  This repository contains HCA Benchmarking codes
  ☆26Nov 11, 2019Updated 6 years ago
• fperraudeau / bioc2017singlecell

  View on GitHub
  Bioconductor2017 workshop - Analysis of single-cell RNA-seq data: Normalization, dimensionality reduction, clustering, and lineage infere…
  ☆11Aug 4, 2017Updated 8 years ago
• Bioconductor / OrchestratingSingleCellAnalysis-release

  View on GitHub
  An online companion to the OSCA manuscript demonstrating Bioconductor resources and workflows for single-cell RNA-seq analysis.
  ☆37Mar 15, 2023Updated 2 years ago
• mtmorgan / TENxGenomics

  View on GitHub
  Interface to 10x Genomics' 1.3 m single cell data set
  ☆18Aug 2, 2018Updated 7 years ago
• rhondabacher / SCnorm

  View on GitHub
  Normalization for single cell RNA-seq data
  ☆51Jun 11, 2025Updated 8 months ago
• LuyiTian / sc_mixology

  View on GitHub
  This contains the dataset for comparing scRNA-seq analysis methods
  ☆92Aug 26, 2020Updated 5 years ago
• genesofeve / projectR

  View on GitHub
  ☆63Mar 18, 2025Updated 10 months ago
• Bioconductor / TENxBrainAnalysis

  View on GitHub
  R scripts for analyzing the 1.3 million brain cell data set from 10X Genomics
  ☆12Mar 15, 2023Updated 2 years ago
• iaconogi / bigSCale2

  View on GitHub
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆108Jul 3, 2023Updated 2 years ago
• SydneyBioX / scMerge

  View on GitHub
  Statistical approach for removing unwanted variation from multiple single-cell datasets
  ☆70Apr 12, 2024Updated last year
• caleblareau / immune_cell_signature_genes

  View on GitHub
  Repository for signature genes from Immune Cell Atlas
  ☆18Sep 25, 2019Updated 6 years ago
• epurdom / clusterExperiment

  View on GitHub
  R package of techniques for comparing clusterings of single-cell sequencing data
  ☆41Apr 26, 2024Updated last year
• AllenInstitute / scrattch.vis

  View on GitHub
  scRNA-seq data visualization from scrattch
  ☆29Aug 20, 2025Updated 5 months ago
• AllonMKlein / scrublet

  View on GitHub
  Detect doublets in single-cell RNA-seq data
  ☆86Jul 3, 2019Updated 6 years ago
• koelling / amplimap

  View on GitHub
  amplicon/smMIP mapping and analysis pipeline
  ☆11Dec 8, 2022Updated 3 years ago
• umccr / RNAsum

  View on GitHub
  Pipeline for generating RNAseq-based cancer patient reports
  ☆11Feb 4, 2026Updated last week
• dtsoucas / GiniClust2

  View on GitHub
  ☆12Jul 13, 2018Updated 7 years ago
• lilab-bcb / cumulus

  View on GitHub
  Cloud-based scalable and efficient single-cell genomics workflows
  ☆68Jan 23, 2026Updated 3 weeks ago
• markrobinsonuzh / scRNAseq_clustering_comparison

  View on GitHub
  A study to compare methods for clustering of scRNA-seq data
  ☆45Jul 19, 2024Updated last year
• mikelove / asthma

  View on GitHub
  RNA-seq quantifications: gene expression responses to human rhinovirus infection for 6 asthmatic and 6 non-asthmatic donors (SRP046226)
  ☆19Nov 22, 2017Updated 8 years ago
• davismcc / workshop-scRNAseq-oxford-sep2016

  View on GitHub
  scRNA-seq workshop in Oxford on 9 September 2016
  ☆11Sep 7, 2016Updated 9 years ago
• broadinstitute / dropviz

  View on GitHub
  Shiny app for visualization, exploration of mouse brain single cell gene expression
  ☆11Oct 31, 2018Updated 7 years ago
• stephaniehicks / spatialexperiment-analysis

  View on GitHub
  repo to explore spatial data in R/Bioconductor and Python
  ☆12Dec 3, 2019Updated 6 years ago
• LieberInstitute / megadepth

  View on GitHub
  R interface to megadepth: BigWig and BAM related utilities
  ☆12Dec 12, 2024Updated last year
• pmelsted / AM_2024

  View on GitHub
  Analaysis for the batch correction paper
  ☆12Apr 26, 2025Updated 9 months ago
• ropensci / BaseSet

  View on GitHub
  Provides classes for working with sets
  ☆11Dec 19, 2025Updated last month
• BaderLab / AgingMouseBrainCCInx

  View on GitHub
  Predicted cell-cell interactions of the aging mouse brain
  ☆20Sep 24, 2019Updated 6 years ago
• forrest-lab / scMatch

  View on GitHub
  scMatch: a single-cell gene expression profile annotation tool using reference datasets
  ☆21Aug 11, 2020Updated 5 years ago
• ProSolo / prosolo

  View on GitHub
  ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.
  ☆21Sep 1, 2021Updated 4 years ago
• SimoneTiberi / BANDITS

  View on GitHub
  BANDITS: Bayesian ANalysis of DIfferenTial Splicing
  ☆19Sep 29, 2025Updated 4 months ago
• AllenInstitute / scrattch

  View on GitHub
  Single cell RNA-seq analysis for transcriptomic type characterization
  ☆38Sep 17, 2025Updated 4 months ago
• stephaniehicks / methylCC

  View on GitHub
  R/BioC package to estimate the cell composition of whole blood in DNA methylation samples in microarray or sequencing platforms
  ☆18Nov 26, 2025Updated 2 months ago
• sararselitsky / FastPG

  View on GitHub
  Fast phenograph, CyTOF
  ☆26Aug 19, 2022Updated 3 years ago
• MSingerLab / COMETSC

  View on GitHub
  COMET Single-Cell Marker Detection tool
  ☆32Jun 21, 2022Updated 3 years ago
• waldronlab / MultiAssayExperiment

  View on GitHub
  Bioconductor package for management of multi-assay data
  ☆73Nov 17, 2025Updated 2 months ago
• gillislab / MetaMarkers

  View on GitHub
  Efficiently compute robust markers across single-cell datasets
  ☆12Apr 21, 2021Updated 4 years ago
• gui11aume / mmp

  View on GitHub
  MEM mapper prototype
  ☆13Nov 28, 2020Updated 5 years ago
• dgrtwo / GSEAMA

  View on GitHub
  Gene Set Enrichment Analysis Made Awesome
  ☆12May 11, 2018Updated 7 years ago
• genetronhealth / uvc

  View on GitHub
  UVC, a very accurate small-variant caller (https://doi.org/10.1093/bib/bbab458)
  ☆14May 18, 2025Updated 8 months ago