Alternatives and similar repositories for ncem

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

• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆68Updated 2 years ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆62Updated this week
• theislab / graphcompass
  GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems
  ☆36Updated this week
• nitzanlab / biolord
  ☆80Updated 11 months ago
• theislab / moscot
  Multi-omic single-cell optimal transport tools
  ☆164Updated this week
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆81Updated last week
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆113Updated last year
• scverse / pertpy
  Perturbation Analysis in the scverse ecosystem.
  ☆185Updated this week
• theislab / prophet
  ☆34Updated 2 months ago
• zcang / SpaOTsc
  ☆45Updated 2 years ago
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆104Updated this week
• cantinilab / scPRINT
  single cell foundation model for Gene network inference and more
  ☆90Updated last week
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆110Updated 8 months ago
• calico / scnym
  Semi-supervised adversarial neural networks for classification of single cell transcriptomics data
  ☆75Updated 6 months ago
• raphael-group / paste
  Probabilistic Alignment of Spatial Transcriptomics Experiments
  ☆88Updated 4 months ago
• snap-stanford / stellar
  ☆67Updated 2 years ago
• klarman-cell-observatory / scPhere
  ☆100Updated 2 years ago
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆61Updated last year
• MICS-Lab / novae
  Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…
  ☆51Updated last week
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆80Updated 3 weeks ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆126Updated 2 weeks ago
• snap-stanford / SATURN
  ☆131Updated last year
• pinellolab / simba
  SIMBA: SIngle-cell eMBedding Along with features
  ☆63Updated 8 months ago
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆99Updated last month
• dpeerlab / ENVI
  ☆48Updated last month
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆67Updated 2 years ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆43Updated 3 years ago
• shuxiaoc / mario-py
  MARIO: single-cell proteomic data matching and integration using both shared and distinct features
  ☆22Updated last year
• scverse / scvi-tutorials
  Notebooks used in scvi-tools tutorials
  ☆54Updated this week
• prabhakarlab / Banksy_py
  ☆56Updated 7 months ago