Alternatives and similar repositories for awesome-single-cell

Users that are interested in awesome-single-cell are comparing it to the libraries listed below

• elimereu / matchSCore2
  ☆55Updated 4 years ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆85Updated last year
• caleblareau / BuenColors
  R package of colors for the Buenrostro Lab
  ☆86Updated last year
• rpolicastro / scProportionTest
  ☆74Updated 2 years ago
• const-ae / lemur
  Latent Embedding Multivariate Regression
  ☆97Updated 11 months ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆77Updated 2 years ago
• MarioniLab / DropletUtils
  Clone of the Bioconductor repository for the DropletUtils package.
  ☆62Updated 2 months ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆98Updated 4 years ago
• niaid / dsb
  Normalize CITEseq Data
  ☆66Updated last week
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• sansomlab / tenx
  Pipelines for the analysis of 10x single-cell RNA-sequencing data
  ☆58Updated 2 years ago
• MarioniLab / scran
  Clone of the Bioconductor repository for the scran package.
  ☆45Updated last year
• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆52Updated last year
• jon-xu / scSplit
  Genotype-free demultiplexing of pooled single-cell RNA-Seq, using a hidden state model for identifying genetically distinct samples withi…
  ☆41Updated 2 years ago
• iaconogi / bigSCale2
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆107Updated 2 years ago
• MangiolaLaboratory / sccomp
  Bayesian mixed-effect model to test differences in cell type proportions from single-cell data, in R
  ☆112Updated this week
• ycl6 / StackedVlnPlot
  Create stacked violin plot
  ☆51Updated 3 years ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆64Updated last year
• stemangiola / CuratedAtlasQueryR
  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
  ☆92Updated 11 months ago
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆75Updated last week
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆69Updated 5 years ago
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆81Updated 3 years ago
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆75Updated 4 years ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆79Updated 8 months ago
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆57Updated 4 years ago
• vertesy / Seurat.utils
  Various utility functions for Seurat single-cell analysis
  ☆54Updated this week
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆86Updated 6 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆97Updated 2 years ago
• rcannood / SCORPIUS
  Linear trajectory inference for single-cell RNA-seq
  ☆61Updated last year
• kevinblighe / scDataviz
  scDataviz: single cell dataviz and downstream analyses
  ☆64Updated 4 years ago