Utilities for large scale distributed single cell data processing
☆24Jan 20, 2026Updated 2 months ago
Alternatives and similar repositories for sctools
Users that are interested in sctools are comparing it to the libraries listed below
Sorting:
- Simple walk-throughs of interacting with the DCP as a downstream data consumer.☆17Feb 11, 2026Updated last month
- A performant scientific image visualization system.☆36Updated this week
- Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines☆47Mar 13, 2025Updated last year
- qtools has helper functions to submit jobs to compute clusters (PBS on TSCC, SGE on oolite) from within Python☆21Sep 20, 2023Updated 2 years ago
- A collection of Python clients and accessory scripts for interacting with the Cromwell☆23Nov 16, 2022Updated 3 years ago
- Conditional Autoencoders for Multiplexed Pixel Analysis☆18Nov 25, 2022Updated 3 years ago
- STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data☆180Dec 18, 2021Updated 4 years ago
- An R-based interface for loom files☆68Jul 9, 2020Updated 5 years ago
- GraphQL and Rest API rewrite of the current Open Targets platform API☆15Updated this week
- Improved Ribo-seq enables identification of cryptic translation events☆17Feb 13, 2018Updated 8 years ago
- Python package to perform normalization and variance-stabilization of single-cell data☆27Jul 17, 2025Updated 8 months ago
- ☆12Jan 31, 2023Updated 3 years ago
- Spatial omics analysis and visualization library☆24Updated this week
- Supplementary data for Petti, et al 2019 scRNA mutation publication☆16Feb 1, 2023Updated 3 years ago
- Reliable, scalable, efficient demultiplexing for single-cell RNA sequencing☆26Jul 20, 2025Updated 8 months ago
- ☆12Jul 6, 2023Updated 2 years ago
- Visualize cancer genomes with FAIR single-cell RNA-seq data☆12Jan 5, 2023Updated 3 years ago
- ☆48Mar 1, 2018Updated 8 years ago
- Singular Genomics Demultiplexing Tool☆16Mar 5, 2024Updated 2 years ago
- requirements, examples, and tests for expression matrix file formats☆22Sep 18, 2018Updated 7 years ago
- Probabilistic single-cell pseudotime with Edward+Tensorflow☆12Oct 5, 2017Updated 8 years ago
- A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…☆58May 5, 2021Updated 4 years ago
- ☆10Aug 29, 2023Updated 2 years ago
- Quantitative Methods in Genetics and Genomics Course 2020☆23Mar 27, 2020Updated 5 years ago
- ☆12Dec 1, 2021Updated 4 years ago
- Developers Dashboard| Issues and Bugs aggregation | Gsoc 2015 project | Debian Community☆11Jul 10, 2016Updated 9 years ago
- machine-readable file format for genomic library sequence and structure☆128Mar 2, 2026Updated 2 weeks ago
- ☆41Feb 12, 2026Updated last month
- Rawls service for DSDE☆26Mar 2, 2026Updated 2 weeks ago
- HiCnv is used to call copy number variations and breakpoints from Hi-C data☆23Mar 30, 2024Updated last year
- ☆13Nov 26, 2025Updated 3 months ago
- Dataloader for applying sequence models to personalized genomics☆28Updated this week
- ☆15Mar 11, 2026Updated last week
- pandasGWAS: a Python package for easy retrieval of GWAS Catalog data☆17Dec 19, 2025Updated 3 months ago
- A lightweight reimplementation of some of the algorithms in the MEME suite in Python.☆31Updated this week
- epigenome analysis to rank transcription factors☆32Feb 2, 2023Updated 3 years ago
- Basic, no assumptions, multi-pileup☆24Mar 26, 2014Updated 11 years ago
- Pandas API for multiple Gene Set Enrichment Analysis implementations in Python (GSEApy, cudaGSEA, GSEA)☆16Mar 31, 2023Updated 2 years ago
- FireCloud user interface for web browsers.☆19Aug 22, 2025Updated 6 months ago