Alternatives and similar repositories for scimilarity:

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

• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆120Updated 2 months ago
• scverse / pertpy
  Perturbation Analysis in the scverse ecosystem.
  ☆170Updated this week
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆129Updated 2 years ago
• saezlab / liana-py
  LIANA+: an all-in-one framework for cell-cell communication
  ☆204Updated 2 months ago
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆154Updated 2 years ago
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆346Updated 3 months ago
• saezlab / decoupler-py
  Python package to perform enrichment analysis from omics data.
  ☆192Updated this week
• dpeerlab / spectra
  Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms
  ☆167Updated 8 months ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆56Updated this week
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆360Updated 2 months ago
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆216Updated 3 months ago
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆151Updated this week
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆124Updated 2 months ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆347Updated 3 months ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆119Updated last year
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆144Updated 4 months ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆146Updated 4 years ago
• kaizhang / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆256Updated last week
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆158Updated 3 weeks ago
• Teichlab / SpatialDE
  Test genes for Spatial Variation
  ☆165Updated 11 months ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆197Updated last year
• YosefLab / popV
  ☆72Updated last week
• BiomedicalMachineLearning / stLearn
  A novel machine learning pipeline to analyse spatial transcriptomics data
  ☆218Updated 11 months ago
• snap-stanford / SATURN
  ☆120Updated 9 months ago
• Teichlab / bbknn
  Batch balanced KNN
  ☆159Updated last year
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆357Updated last month
• sunduanchen / Scissor
  Scissor package
  ☆214Updated 11 months ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆131Updated 5 months ago
• cantinilab / scPRINT
  single cell foundation model for Gene network inference and more
  ☆71Updated last week
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆182Updated 4 years ago