Single cell analysis tools for expression from RNA-seq in R
☆10Feb 3, 2016Updated 10 years ago
Alternatives and similar repositories for scater
Users that are interested in scater are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- CellRank's reproducibility repository.☆17Jan 13, 2022Updated 4 years ago
- ☆11Mar 30, 2024Updated 2 years ago
- ☆26Jun 25, 2025Updated 10 months ago
- Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids☆31Aug 8, 2023Updated 2 years ago
- Accurate and fast cell marker gene identification with COSG☆59Mar 7, 2026Updated 2 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.
- Robust, multivariate, multi-sample, multi-celltype QC for single cell RNA-seq data☆41Nov 14, 2022Updated 3 years ago
- MASC: Mixed-effects Association testing for Single Cells☆16Apr 16, 2021Updated 5 years ago
- Interactive single cell RNA-seq analysis webserver!☆10Mar 15, 2023Updated 3 years ago
- A Cloud Pipeline to Analyze Long Read Sequencing Data from Oxford Nanopore and PacBio Sequencers☆12Jan 30, 2023Updated 3 years ago
- This repo is not maintained anymore, please refer to: https://github.com/rnacentre/BrainCellAtlas_reproducibility.☆19Sep 24, 2024Updated last year
- an integrative analysis tool for analysing large-scale single cell RNA-sequencing data☆37Aug 7, 2023Updated 2 years ago
- Benchmarking computational doublet-detection methods for single-cell RNA sequencing data☆10Feb 25, 2021Updated 5 years ago
- ☆21Aug 4, 2024Updated last year
- analyze_geo_microarrays.py : Differential expression analysis of published microarrays datasets from the NCBI Gene Expression Omnibus (GE…☆11Aug 1, 2021Updated 4 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.
- MERFISH decoding software☆26Aug 16, 2025Updated 9 months ago
- A user-friendly R pipeline for biomarker discovery in single-cell transcriptomics☆14Jan 9, 2026Updated 4 months ago
- Simulating single-cell data using gene regulatory networks 📠☆80Apr 1, 2026Updated last month
- Efficient and precise single-cell reference atlas mapping with Symphony☆119Oct 31, 2025Updated 6 months ago
- Single-cell Consensus Clusters of Encoded Subspaces☆15Aug 14, 2023Updated 2 years ago
- ☆12Nov 7, 2022Updated 3 years ago
- This is a repository of the scLinaX R package developed in the Tomofuji et al (Quantification of escape from X chromosome inactivation wi…☆11Sep 12, 2025Updated 8 months ago
- I redo the ScRNA analysis in the paper of Wang et al 2020, Nat Comm. Here's my modified script for Helen He Zhu github (https://github.co…☆12Aug 28, 2021Updated 4 years ago
- Implementation of a deep convolutional neural network for predicting chromatin features from DNA sequence☆16Jan 13, 2022Updated 4 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.
- Uncovering cell identity genes using differential stability of expression in single cells.☆15Jul 2, 2024Updated last year
- Code repository for single cell RNA-seq☆42Oct 12, 2020Updated 5 years ago
- Capybara: A computational tool to measure cell identity and fate transitions☆63May 23, 2022Updated 4 years ago
- ☆19Mar 31, 2023Updated 3 years ago
- Reproducibility repository for the Human Neural Organoid Atlas publication☆48Dec 16, 2024Updated last year
- ☆26Mar 31, 2026Updated last month
- A workflow for metabolite identification and accurate profiling in multidimensional LC-IM-MS-DIA measurements. DOI: 10.5281/zenodo.☆16Apr 25, 2023Updated 3 years ago
- ☆16Mar 18, 2025Updated last year
- The following code accompanies a manuscript combining single-cell RNA-sequencing and genotyping to analyze cellular hierarchies in acute …☆47Apr 8, 2020Updated 6 years ago
- 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.
- Assembly and Annotation of the Human Immune Health Atlas☆24Aug 28, 2025Updated 8 months ago
- ☆41Oct 16, 2024Updated last year
- Umbrella documentation project for Nextstrain☆18Updated this week
- This is an official replacement for https://bitbucket.org/feeldead/gfold☆10Aug 30, 2020Updated 5 years ago
- Senescent Cell Identification☆52Feb 22, 2024Updated 2 years ago
- Spatial Multiomics Profiler for Spatial Characterization of Tissue Microenvironment (https://smprofiler.io)☆23Apr 29, 2026Updated 3 weeks ago
- Allen Brain Atlas utilities, parsers and data structures☆11Jun 25, 2017Updated 8 years ago