Alternatives and similar repositories for sccaf:

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

• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆71Updated 2 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆64Updated 2 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated 11 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆60Updated 10 months ago
• cellgeni / batchbench
  ☆46Updated 2 years ago
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 2 years ago
• LuckyMD / Code_snippets
  A repo with random short code snippets
  ☆41Updated 5 years ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆84Updated 9 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆104Updated 2 years ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆100Updated 7 months ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆94Updated 3 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆66Updated last week
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆82Updated 8 months ago
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆132Updated this week
• GreenleafLab / MPAL-Single-Cell-2019
  Publication Page for MPAL Paper 2019
  ☆82Updated 4 years ago
• velocyto-team / velocyto-notebooks
  ☆55Updated 6 years ago
• AllonKleinLab / SPRING_dev
  ☆69Updated last year
• dpeerlab / magic
  MAGIC - imputation and de-noising single-cell RNA seq data sets
  ☆27Updated 5 years ago
• Coolgenome / iTALK
  ☆59Updated 5 years ago
• maggiecrow / MetaNeighbor
  ☆50Updated 7 years ago
• gillislab / MetaNeighbor
  A method to rapidly assess cell type identity using both functional and random gene sets
  ☆39Updated 3 months ago
• rajewsky-lab / novosparc
  ☆127Updated last year
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆102Updated 2 years ago
• rnakato / ShortCake
  A docker image for single-cell analysis
  ☆82Updated 2 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆160Updated last year
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 5 years ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆61Updated 3 years ago
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆62Updated 2 months ago