Alternatives and similar repositories for OT-scOmics

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

• ManchesterBioinference / GPcounts
  Gaussian process regression package for counts data with negative binomial and zero-inflated negative binomial likelihoods
  ☆22Updated 4 months ago
• andrewcharlesjones / spatial-alignment
  Alignment of spatial genomics data using deep Gaussian processes
  ☆26Updated 2 years 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
• calico / velodyn
  Dynamical systems methods for RNA velocity analysis
  ☆24Updated 4 years ago
• theislab / trVAE
  Conditional out-of-distribution prediction
  ☆62Updated 11 months ago
• Genentech / sVAE
  ☆63Updated last year
• calico / scnym
  Semi-supervised adversarial neural networks for classification of single cell transcriptomics data
  ☆75Updated 6 months ago
• PayamDiba / SERGIO
  A simulator for single-cell expression data guided by gene regulatory networks
  ☆63Updated last year
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆74Updated 2 years ago
• Murali-group / BoolODE
  Git Repo for simulating Boolean Models
  ☆35Updated last year
• willtownes / glmpca-py
  generalized principal component analysis (GLM-PCA) implemented in python
  ☆60Updated 4 years ago
• pachterlab / picasso
  Picasso: a methods for embedding points in 2D in a way that respects distances while fitting a user-specified shape.
  ☆70Updated last year
• Teichlab / MultiMAP
  MultiMAP for integration of single cell multi-omics
  ☆56Updated last year
• 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
• dylkot / scsim
  Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells…
  ☆27Updated 3 years ago
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆68Updated 2 years ago
• theislab / mubind
  Learning motif contributions to cell transitions using sequence features and graphs.
  ☆28Updated 10 months ago
• rsinghlab / SCOT
  Gromov-Wasserstein based optimal transport for aligning single-cell multi-omics data
  ☆72Updated last year
• cantinilab / Mowgli
  Single-cell multi-omics integration using Optimal Transport
  ☆45Updated 10 months ago
• KrishnaswamyLab / AAnet
  Archetypal Analysis network (AAnet)
  ☆34Updated 5 months ago
• RabadanLab / randomly
  A Library for Denoising Single-Cell Data with Random Matrix Theory
  ☆37Updated last year
• calico / scmmd
  Maximum mean discrepancy comparisons for single cell profiling experiments
  ☆16Updated 3 years ago
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆35Updated last week
• KrishnaswamyLab / SAUCIE
  ☆100Updated 9 months ago
• welch-lab / VeloVAE
  Deep Generative Modeling of RNA Velocity
  ☆36Updated 2 months ago
• scverse / scvi-tools-skeleton
  Template repository for creating novel models with scvi-tools
  ☆20Updated 2 years ago
• saezlab / corneto
  Unified knowledge-driven network inference from omics data
  ☆44Updated last week
• KrishnaswamyLab / Multiscale_PHATE
  Creating multi-resolution embeddings and clusters from high dimensional data
  ☆54Updated 9 months ago