A collection of scripts and tools for loading, processing, and handling single cell data.
☆77Sep 22, 2025Updated 11 months ago
Alternatives and similar repositories for scprep
Users that are interested in scprep are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Creating multi-resolution embeddings and clusters from high dimensional data☆58Sep 27, 2024Updated last year
- Quantifying experimental perturbations at single cell resolution☆117Sep 27, 2024Updated last year
- Comparison of single cell normalization strategies☆11Aug 13, 2021Updated 5 years ago
- Imputation method for scRNA-seq based on low-rank approximation☆81Dec 14, 2023Updated 2 years ago
- MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological …☆387Oct 3, 2024Updated last year
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- ☆100Jan 27, 2021Updated 5 years ago
- PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.☆559Mar 4, 2026Updated 6 months ago
- Imputation of single cell RNA-sequencing data with autoencoder☆16Jun 23, 2021Updated 5 years ago
- Comparison of single-cell normalization methods using multiple datasets with ground-truth labels☆19Dec 2, 2019Updated 6 years ago
- Rmarkdown / compiled html files for human reprogramming dataset analysis☆18Jun 11, 2020Updated 6 years ago
- benchmark for single-cell RNA-seq imputation methods☆29Mar 16, 2024Updated 2 years ago
- ☆101Oct 1, 2024Updated last year
- Tools for building and manipulating graphs in Python☆46Dec 18, 2025Updated 9 months ago
- Repository for scRNAseq study of human kidneys☆15Jun 14, 2019Updated 7 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Scripts to run and benchmark scRNA-seq cell cluster labeling methods☆48May 23, 2020Updated 6 years ago
- Data and code for the paper "Developmental diversification of cortical inhibitory interneurons"☆24Dec 20, 2018Updated 7 years ago
- kallisto | bustools workflow for pre-processing single-cell RNA-seq data☆122Mar 10, 2026Updated 6 months ago
- Detect doublets in single-cell RNA-seq data☆85Jul 3, 2019Updated 7 years ago
- Compilation of R heatmap functions.☆14Oct 12, 2021Updated 4 years ago
- ATACseqQC tutorials for BioC 2019 workshop☆19Jul 28, 2020Updated 6 years ago
- Benchmarking analysis of data integration tools☆431Apr 27, 2026Updated 4 months ago
- Explore and share your scRNAseq clustering results☆53Sep 6, 2023Updated 3 years ago
- This contains the dataset for comparing scRNA-seq analysis methods☆92Aug 26, 2020Updated 6 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Single-Cell Sequencing Quality Control and Processing Software☆30Sep 16, 2019Updated 7 years ago
- netNMF-sc: A network regularization algorithm for dimensionality reduction and imputation of single-cell expression data☆24Apr 19, 2021Updated 5 years ago
- UNCURL is a tool for single cell RNA-seq data analysis.☆15Jun 27, 2022Updated 4 years ago
- R package for integrating and analyzing multiple single-cell datasets☆432Aug 18, 2026Updated last month
- Single-Cell Sequencing Quality Control and Processing Software☆16Mar 26, 2022Updated 4 years ago
- Geometry-preserving random sampling☆98Oct 29, 2024Updated last year
- Consistent Clusters for scRNA-seq☆12Oct 6, 2021Updated 4 years ago
- Episcanpy: Epigenomics Single Cell Analysis in Python☆153Dec 5, 2024Updated last year
- Tools and methods for analysis of single cell assay data in R☆264Oct 17, 2025Updated 11 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆29Sep 4, 2023Updated 3 years ago
- A method to rapidly assess cell type identity using both functional and random gene sets☆15May 2, 2019Updated 7 years ago
- ☆50Mar 1, 2018Updated 8 years ago
- ☆11Jan 7, 2020Updated 6 years ago
- ☆52Jan 16, 2020Updated 6 years ago
- muon is a multimodal omics Python framework☆279Updated this week
- Single Cell Consensus Clustering with Speed☆22Dec 12, 2022Updated 3 years ago