Alternatives and similar repositories for OT-scOmics

Users that are interested in OT-scOmics are comparing it to the libraries listed below

• Murali-group / BoolODE
  Git Repo for simulating Boolean Models
  ☆35Updated last year
• KrishnaswamyLab / AAnet
  Archetypal Analysis network (AAnet)
  ☆33Updated 4 months ago
• zcang / SpaOTsc
  ☆45Updated 2 years ago
• ManchesterBioinference / GPcounts
  Gaussian process regression package for counts data with negative binomial and zero-inflated negative binomial likelihoods
  ☆21Updated 4 months ago
• andrewcharlesjones / spatial-alignment
  Alignment of spatial genomics data using deep Gaussian processes
  ☆26Updated 2 years ago
• scverse / simple-scvi
  Simple scVI implementation
  ☆11Updated this week
• PayamDiba / SERGIO
  A simulator for single-cell expression data guided by gene regulatory networks
  ☆63Updated last year
• willtownes / nsf-paper
  Nonnegative spatial factorization for multivariate count data
  ☆58Updated last year
• klarman-cell-observatory / scPhere
  ☆100Updated 2 years ago
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• rsinghlab / SCOT
  Gromov-Wasserstein based optimal transport for aligning single-cell multi-omics data
  ☆72Updated last year
• scverse / scvi-tools-skeleton
  Template repository for creating novel models with scvi-tools
  ☆20Updated 2 years ago
• Genentech / sVAE
  ☆63Updated last year
• calico / scnym
  Semi-supervised adversarial neural networks for classification of single cell transcriptomics data
  ☆75Updated 5 months ago
• KrishnaswamyLab / MELD
  Quantifying experimental perturbations at single cell resolution
  ☆109Updated 8 months ago
• calico / velodyn
  Dynamical systems methods for RNA velocity analysis
  ☆24Updated 4 years ago
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆72Updated 2 years ago
• zsteve / gWOT
  Global Waddington-OT
  ☆23Updated 3 months ago
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆68Updated 2 years ago
• welch-lab / VeloVAE
  Deep Generative Modeling of RNA Velocity
  ☆36Updated last month
• Bertinus / FLeCS
  Functional and Learnable Cell dynamicS
  ☆17Updated last month
• berenslab / umi-normalization
  Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…
  ☆40Updated 3 years ago
• hui2000ji / scETM
  A generative topic model that facilitates integrative analysis of large-scale single-cell RNA sequencing data.
  ☆50Updated 3 years ago
• Teichlab / MultiMAP
  MultiMAP for integration of single cell multi-omics
  ☆56Updated last year
• scverse / scvi-tutorials
  Notebooks used in scvi-tools tutorials
  ☆54Updated this week
• theislab / ncem
  Learning cell communication from spatial graphs of cells
  ☆111Updated last year
• cantinilab / Mowgli
  Single-cell multi-omics integration using Optimal Transport
  ☆45Updated 9 months ago
• YosefLab / SymSim
  ☆26Updated 9 months ago
• saezlab / omnipath
  Python client for the OmniPath web service
  ☆45Updated last month
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆35Updated 3 months ago