Alternatives and similar repositories for scimilarity

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

• scverse / pertpy
  Single-cell perturbation analysis
  ☆213Updated last week
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆393Updated 2 months ago
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆152Updated 8 months ago
• scverse / decoupler
  Python package to perform enrichment analysis from omics data.
  ☆238Updated last week
• saezlab / liana-py
  LIANA+: an all-in-one framework for cell-cell communication
  ☆245Updated this week
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆77Updated last week
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆167Updated 3 years ago
• dpeerlab / spectra
  Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms
  ☆178Updated last year
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆144Updated 2 years ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆397Updated 10 months ago
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆389Updated last month
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆228Updated last week
• broadinstitute / Tangram
  Spatial alignment of single cell transcriptomic data.
  ☆336Updated 4 months ago
• snap-stanford / SATURN
  ☆143Updated last year
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆178Updated last week
• Teichlab / SpatialDE
  Test genes for Spatial Variation
  ☆176Updated last year
• JackieHanLab / TOSICA
  Transformer for One-Stop Interpretable Cell-type Annotation
  ☆144Updated last year
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆425Updated this 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…
  ☆239Updated 9 months ago
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆148Updated 11 months ago
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆113Updated this week
• openproblems-bio / openproblems-v2
  Formalizing and benchmarking open problems in single-cell genomics
  ☆57Updated 5 months ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆136Updated 8 months ago
• ZhangLabGT / scMultiSim
  A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
  ☆63Updated 2 weeks ago
• BiomedicalMachineLearning / stLearn
  A novel machine learning pipeline to analyse spatial transcriptomics data
  ☆234Updated 2 weeks ago
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆107Updated last month
• Winnie09 / GPTCelltype
  ☆214Updated last year
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆218Updated last year
• scverse / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆298Updated this week
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆169Updated 7 months ago