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
  ☆165Updated 11 months ago
• scverse / pertpy
  Single-cell perturbation analysis
  ☆283Updated this week
• saezlab / liana-py
  LIANA+: an all-in-one framework for cell-cell communication
  ☆265Updated 2 weeks ago
• scverse / decoupler
  Python package to perform enrichment analysis from omics data.
  ☆253Updated this week
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆406Updated 4 months ago
• dpeerlab / spectra
  Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms
  ☆188Updated last week
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆149Updated 3 years ago
• snap-stanford / SATURN
  ☆155Updated last year
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆413Updated this week
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆398Updated 2 months ago
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆234Updated last week
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆85Updated last week
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆171Updated 3 years ago
• Teichlab / SpatialDE
  Test genes for Spatial Variation
  ☆182Updated last year
• ZhangLabGT / scMultiSim
  A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
  ☆69Updated 3 months ago
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆180Updated last week
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆245Updated 3 weeks ago
• scverse / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆308Updated last week
• nitzanlab / biolord
  ☆90Updated last year
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆451Updated last week
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆162Updated 5 years ago
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆113Updated 4 months ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆143Updated 2 years ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆178Updated 10 months ago
• Durenlab / LINGER
  ☆124Updated last week
• broadinstitute / Tangram
  Spatial alignment of single cell transcriptomic data.
  ☆352Updated 7 months ago
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆149Updated last year
• theislab / diffxpy
  Differential expression analysis for single-cell RNA-seq data.
  ☆206Updated 3 months ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆149Updated 2 weeks ago
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆117Updated 3 weeks ago