ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
☆458Feb 18, 2025Updated last year
Alternatives and similar repositories for ArchR
Users that are interested in ArchR are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- R toolkit for the analysis of single-cell chromatin data☆420Jun 20, 2026Updated last week
- Analysis Pipeline for Single Cell ATAC-seq☆322Apr 27, 2023Updated 3 years ago
- chromatin Variability Across Regions (of the genome!)☆191May 1, 2026Updated last month
- Publication Page for Satpathy*, Granja* et al 2019☆96Apr 29, 2020Updated 6 years ago
- R package implementation of Milo for testing for differential abundance in KNN graphs☆436May 11, 2026Updated last month
- 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 Transcriptome and Regulome Analysis Pipeline☆311Mar 6, 2023Updated 3 years ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆260Jan 16, 2026Updated 5 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆661Jun 5, 2026Updated 3 weeks ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆147Apr 5, 2024Updated 2 years ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data☆791Jan 6, 2024Updated 2 years ago
- Single-cell epigenomics analysis tools☆321Updated this week
- R package for integrating and analyzing multiple single-cell datasets☆431Feb 4, 2026Updated 4 months ago
- SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.☆488Apr 5, 2024Updated 2 years ago
- R toolkit for single cell genomics☆2,757Updated this week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Publication Page for MPAL Paper 2019☆86Jun 25, 2020Updated 6 years ago
- Multi-omic velocity inference☆119Oct 23, 2024Updated last year
- NicheNet: predict active ligand-target links between interacting cells☆661Jun 1, 2026Updated 3 weeks ago
- Cell type specific enrichments using finemapped variants and quantitative epigenetic data☆49Sep 1, 2023Updated 2 years ago
- RNA Velocity generalized through dynamical modeling☆505Feb 25, 2026Updated 4 months ago
- A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data☆83Mar 16, 2026Updated 3 months ago
- This is the alpha version of the CellOracle package☆470Apr 30, 2026Updated last month
- Community-provided extensions to Seurat☆365Feb 17, 2026Updated 4 months ago
- CellRank: dynamics from multi-view single-cell data☆453Updated this week
- 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.
- Inferring CNV from Single-Cell RNA-Seq☆675Nov 14, 2025Updated 7 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆614Jun 26, 2025Updated last year
- Benchmarking computational single cell ATAC-seq methods☆184Nov 30, 2020Updated 5 years ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆192Mar 27, 2025Updated last year
- Publication Page for ArchR Manuscript 2020☆24Aug 17, 2021Updated 4 years ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆403Jun 16, 2026Updated last week
- High dimensional weighted gene co-expression network analysis☆481Jun 16, 2026Updated last week
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆122Jan 22, 2024Updated 2 years ago
- Tools for single-cell data processing☆135May 27, 2024Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆339Apr 23, 2024Updated 2 years ago
- R package for detecting doublets in single-cell RNA sequencing data☆552Mar 21, 2025Updated last year
- Benchmarking analysis of data integration tools☆423Apr 27, 2026Updated 2 months ago
- Scaling Single Cell Analysis to Millions of Cells☆290Jun 13, 2026Updated 2 weeks ago
- A package to help convert different single-cell data formats to each other☆470Feb 20, 2026Updated 4 months ago
- Fast motif matching in R☆48Jan 24, 2024Updated 2 years ago
- R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆302Updated this week