cantinilab / OT-scOmics
This Python package will allow you to replicate the experiments from our research on applying Optimal Transport as a similarity metric in between single-cell omics data.
☆38Updated last year
Alternatives and similar repositories for OT-scOmics:
Users that are interested in OT-scOmics are comparing it to the libraries listed below
- Git Repo for simulating Boolean Models☆33Updated 7 months ago
- A simulator for single-cell expression data guided by gene regulatory networks☆57Updated 8 months ago
- Gaussian process regression package for counts data with negative binomial and zero-inflated negative binomial likelihoods☆21Updated 4 months ago
- Nonnegative spatial factorization for multivariate count data☆57Updated last year
- A collection of scripts and tools for loading, processing, and handling single cell data.☆72Updated last year
- ☆24Updated 4 months ago
- Alignment of spatial genomics data using deep Gaussian processes☆25Updated 2 years ago
- Archetypal Analysis network (AAnet)☆31Updated 3 months ago
- Gromov-Wasserstein based optimal transport for aligning single-cell multi-omics data☆67Updated last year
- Simple scVI implementation☆10Updated last month
- Quantifying experimental perturbations at single cell resolution☆106Updated 4 months ago
- Global Waddington-OT☆21Updated 5 months ago
- ☆45Updated 2 years ago
- ☆99Updated last year
- Regulatory networks with Direct Information in python☆39Updated last year
- Dynamical systems methods for RNA velocity analysis☆24Updated 3 years ago
- Template repository for creating novel models with scvi-tools☆19Updated 2 years ago
- Deep Generative Modeling of RNA Velocity☆35Updated 3 months ago
- MultiMAP for integration of single cell multi-omics☆54Updated last year
- Maximum mean discrepancy comparisons for single cell profiling experiments☆15Updated 2 years ago
- Conditional out-of-distribution prediction☆56Updated 5 months ago
- Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells…☆26Updated 3 years ago
- ☆49Updated 5 years ago
- ☆58Updated last year
- Multi-omic single-cell optimal transport tools☆127Updated this week
- Tutorials on using latest dynamo package☆24Updated 3 months ago
- generalized principal component analysis (GLM-PCA) implemented in python☆58Updated 3 years ago
- spatial transcriptome, single cell☆67Updated last year
- The software of Pamona, a partial manifold alignment algorithm.☆19Updated 3 years ago
- A generative topic model that facilitates integrative analysis of large-scale single-cell RNA sequencing data.☆49Updated 3 years ago