Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells and cells with shared gene-expression programs.
☆30Oct 16, 2021Updated 4 years ago
Alternatives and similar repositories for scsim
Users that are interested in scsim are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Access public biological ontologies.☆14Aug 7, 2024Updated 2 years ago
- Python framework for single-cell RNA-seq clustering with special focus on transfer learning.☆19Aug 29, 2019Updated 6 years ago
- Read fcs files.☆12Nov 13, 2025Updated 8 months ago
- a simple R data package for curated cancer pathway-specific gene lists☆13Mar 31, 2020Updated 6 years ago
- ☆29Sep 4, 2023Updated 2 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Deep count autoencoder for denoising scRNA-seq data☆274Mar 21, 2024Updated 2 years ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆57Jun 2, 2026Updated 2 months ago
- netNMF-sc: A network regularization algorithm for dimensionality reduction and imputation of single-cell expression data☆23Apr 19, 2021Updated 5 years ago
- Build contrasts for models defined with formulaic☆13Aug 3, 2026Updated last week
- An unsupervised scRNA-seq analysis workflow with graph attention networks☆25May 14, 2023Updated 3 years ago
- ☆28Jan 28, 2020Updated 6 years ago
- ☆11Feb 18, 2019Updated 7 years ago
- Quantifying experimental perturbations at single cell resolution☆115Sep 27, 2024Updated last year
- PROGENY Python implementation☆12Apr 5, 2022Updated 4 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…☆70Dec 3, 2025Updated 8 months ago
- ENHANCE: Accurate denoising of single-cell RNA-Seq data (Python implementation)☆15Jun 5, 2019Updated 7 years ago
- Imputation method for scRNA-seq based on low-rank approximation☆81Dec 14, 2023Updated 2 years ago
- ☆15Jun 17, 2021Updated 5 years ago
- ☆10Dec 14, 2016Updated 9 years ago
- nimfa - A Python Library for Nonnegative Matrix Factorization Techniques☆10Aug 30, 2018Updated 7 years ago
- Light-weight Jupyter notebook tracker.☆34Apr 30, 2025Updated last year
- Episcanpy: Epigenomics Single Cell Analysis in Python☆152Dec 5, 2024Updated last year
- Shadow objects for AnnData and MuData (experimental)☆11Feb 28, 2025Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- This is the repository for the single-cell transcriptomics application of the Deep Generative Decoder (DGD), developed by the Krogh group…☆15Aug 8, 2024Updated 2 years ago
- ☆19Sep 18, 2019Updated 6 years ago
- ☆19May 29, 2026Updated 2 months ago
- Reproducing the experiments of the paper "Deep generative modeling for single-cell transcriptomics"☆57Dec 15, 2018Updated 7 years ago
- scPrisma is a spectral analysis method, for pseudotime reconstruction, informative genes inference, filtering, and enhancement of underly…☆21Mar 31, 2024Updated 2 years ago
- Single-cell RNA-seq Gene Expression Recovery☆115Nov 28, 2024Updated last year
- An interpretable simulator that generates realistic single-cell gene expression count data with gene correlations recapitulated☆30Nov 2, 2024Updated last year
- ☆14Apr 20, 2023Updated 3 years ago
- Registries for biological ontologies.☆27Aug 3, 2026Updated last week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Maximum mean discrepancy comparisons for single cell profiling experiments☆20Feb 9, 2022Updated 4 years ago
- A collection of scripts and tools for loading, processing, and handling single cell data.☆77Sep 22, 2025Updated 10 months ago
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆23Jun 28, 2024Updated 2 years ago
- Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data☆155Jun 26, 2026Updated last month
- generalized principal component analysis (GLM-PCA) implemented in python☆65Feb 1, 2021Updated 5 years ago
- High-Performance Sparse Matrix Library☆19Nov 23, 2025Updated 8 months ago
- Fast array utilities☆15Updated this week