Alternatives and similar repositories for MuVI

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

• theislab / inVAE
  Invariant Representation learning
  ☆17Updated last year
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆68Updated 2 years ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆62Updated last week
• gifford-lab / prescient
  Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
  ☆48Updated 5 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
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆61Updated last year
• theislab / DRVI
  Unsupervised Deep Disentangled Representation of Single-Cell Omics
  ☆44Updated this week
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆72Updated 5 months ago
• settylab / Mellon
  Non-parametric density inference for single-cell analysis.
  ☆72Updated last month
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆119Updated this week
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆110Updated 8 months ago
• willtownes / nsf-paper
  Nonnegative spatial factorization for multivariate count data
  ☆58Updated 2 years ago
• KrishnaswamyLab / MELD
  Quantifying experimental perturbations at single cell resolution
  ☆109Updated 9 months ago
• dpeerlab / spectra
  Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms
  ☆171Updated 11 months ago
• quadbio / Pando
  Multiome GRN inference.
  ☆124Updated last year
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆61Updated last week
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆59Updated last week
• scverse / scvi-tools-skeleton
  Template repository for creating novel models with scvi-tools
  ☆20Updated 2 years ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆164Updated 3 months ago
• theislab / moscot
  Multi-omic single-cell optimal transport tools
  ☆164Updated last week
• theislab / ncem
  Learning cell communication from spatial graphs of cells
  ☆112Updated last year
• openproblems-bio / openproblems-v2
  Formalizing and benchmarking open problems in single-cell genomics
  ☆56Updated last month
• scverse / scvi-tutorials
  Notebooks used in scvi-tools tutorials
  ☆54Updated last week
• welch-lab / pyliger
  Python package for integrating and analyzing multiple single-cell datasets (A Python version of LIGER)
  ☆30Updated 2 months ago
• calico / scnym
  Semi-supervised adversarial neural networks for classification of single cell transcriptomics data
  ☆75Updated 6 months ago
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆99Updated last month
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆87Updated 8 months ago
• zcang / SpaOTsc
  ☆45Updated 2 years ago
• theislab / sfaira
  data and model repository for single-cell data
  ☆135Updated last year
• YosefLab / velovi
  ☆40Updated last week