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
  ☆70Updated 2 years ago
• nitzanlab / biolord
  ☆85Updated last year
• theislab / graphcompass
  GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems
  ☆38Updated 3 months ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆74Updated this week
• scverse / pertpy
  Single-cell perturbation analysis
  ☆204Updated last week
• theislab / moscot
  Multi-omic single-cell optimal transport tools
  ☆175Updated last week
• MICS-Lab / novae
  Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…
  ☆56Updated this week
• zcang / SpaOTsc
  ☆45Updated 3 months ago
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆94Updated 2 months ago
• 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
• theislab / DRVI
  Unsupervised Deep Disentangled Representation of Single-Cell Omics
  ☆53Updated last week
• calico / scnym
  Semi-supervised adversarial neural networks for classification of single cell transcriptomics data
  ☆76Updated 9 months ago
• raphael-group / paste
  Probabilistic Alignment of Spatial Transcriptomics Experiments
  ☆96Updated 8 months ago
• theislab / prophet
  ☆35Updated last month
• KrishnaswamyLab / MELD
  Quantifying experimental perturbations at single cell resolution
  ☆110Updated last year
• dpeerlab / ENVI
  ☆50Updated 2 weeks ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆46Updated 4 years ago
• theislab / sfaira
  data and model repository for single-cell data
  ☆135Updated last year
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆151Updated 8 months ago
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆73Updated last year
• cantinilab / scPRINT
  🏃 The go-to single-cell Foundation Model
  ☆112Updated 2 weeks ago
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆115Updated last year
• pinellolab / simba
  SIMBA: SIngle-cell eMBedding Along with features
  ☆63Updated last year
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆139Updated last week
• shuxiaoc / maxfuse
  ☆56Updated last year
• bowang-lab / DeepVelo
  ☆46Updated last year
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆111Updated last year
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆43Updated 2 years ago
• klarman-cell-observatory / scPhere
  ☆102Updated 2 years ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆67Updated 2 years ago