Alternatives and similar repositories for clustifyr

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

• stemangiola / CuratedAtlasQueryR
  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
  ☆92Updated 7 months ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆95Updated 4 years ago
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆106Updated 2 years ago
• theislab / destiny
  R package for single cell and other data analysis using diffusion maps
  ☆88Updated 8 months ago
• rpolicastro / scProportionTest
  ☆71Updated last year
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆70Updated last year
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆86Updated 2 months ago
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆82Updated 3 months ago
• rezakj / iCellR
  Single (i) Cell R package (iCellR) is an interactive R package to work with high-throughput single cell sequencing technologies (i.e scRN…
  ☆122Updated last year
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆74Updated 4 years ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated 2 years ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆120Updated 2 weeks ago
• cozygene / bisque
  An R toolkit for estimation of cell composition from bulk expression data
  ☆75Updated last month
• const-ae / lemur
  Latent Embedding Multivariate Regression
  ☆93Updated 8 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆105Updated 2 years ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆90Updated last year
• wjawaid / enrichR
  An R interface to enrichR
  ☆91Updated 6 months ago
• iaconogi / bigSCale2
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆104Updated 2 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆131Updated 9 months ago
• GfellerLab / EPIC
  Repository for the R package EPIC, to Estimate the Proportion of Immune and Cancer cells from bulk gene expression data.
  ☆84Updated 2 years ago
• niaid / dsb
  Normalize CITEseq Data
  ☆66Updated 4 months ago
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆195Updated 2 months ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆85Updated 2 months ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆64Updated last year
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆95Updated 2 years ago
• cssmillie / ulcerative_colitis
  ☆63Updated 4 years ago
• MangiolaLaboratory / sccomp
  Mixed-effect model to test differences in cell type proportions from single-cell data, in R
  ☆108Updated last week
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆178Updated last year
• drisso / SingleCellExperiment
  Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCe…
  ☆73Updated last month