R toolkit for the analysis of single-cell chromatin data
☆410Jan 20, 2026Updated 2 months ago
Alternatives and similar repositories for signac
Users that are interested in signac are comparing it to the libraries listed below
Sorting:
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆448Feb 18, 2025Updated last year
- chromatin Variability Across Regions (of the genome!)☆185Jul 10, 2024Updated last year
- Analysis Pipeline for Single Cell ATAC-seq☆322Apr 27, 2023Updated 2 years ago
- R toolkit for single cell genomics☆2,689Updated this week
- R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆293Mar 5, 2026Updated 2 weeks ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data☆772Jan 6, 2024Updated 2 years ago
- R package for detecting doublets in single-cell RNA sequencing data☆533Mar 21, 2025Updated last year
- ☆446Jan 8, 2026Updated 2 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆625Oct 10, 2025Updated 5 months ago
- High dimensional weighted gene co-expression network analysis☆468Mar 13, 2026Updated last week
- Single-cell Transcriptome and Regulome Analysis Pipeline☆306Mar 6, 2023Updated 3 years ago
- R package implementation of Milo for testing for differential abundance in KNN graphs☆423Sep 4, 2025Updated 6 months ago
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆326Apr 23, 2024Updated last year
- Methods for detecting doublets in single-cell sequencing data☆233Feb 12, 2026Updated last month
- R package for integrating and analyzing multiple single-cell datasets☆427Feb 4, 2026Updated last month
- Inferring CNV from Single-Cell RNA-Seq☆660Nov 14, 2025Updated 4 months ago
- CellRank: dynamics from multi-view single-cell data☆433Mar 9, 2026Updated last week
- ☆59Updated this week
- R package for modeling single cell UMI expression data using regularized negative binomial regression☆252Jan 10, 2026Updated 2 months ago
- R package to infer biological activities from omics data using a collection of methods.☆286Dec 16, 2025Updated 3 months ago
- Interfaces for HDF5-based Single Cell File Formats☆175Nov 4, 2023Updated 2 years ago
- RNA velocity estimation in R☆196Sep 14, 2023Updated 2 years ago
- Community-provided extensions to Seurat☆358Feb 17, 2026Updated last month
- AUCell: score single cells with gene regulatory networks☆189Mar 9, 2024Updated 2 years ago
- A toolkit for single-cell immune profiling☆366Mar 9, 2026Updated last week
- SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.☆479Apr 5, 2024Updated last year
- Tools for single-cell data processing☆132May 27, 2024Updated last year
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆317Nov 1, 2022Updated 3 years ago
- RNA Velocity generalized through dynamical modeling☆494Feb 25, 2026Updated 3 weeks ago
- SingleR: Single-cell RNA-seq cell types Recognition (legacy version)☆331Jul 28, 2020Updated 5 years ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆248Jan 16, 2026Updated 2 months ago
- R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets☆246Mar 8, 2026Updated 2 weeks ago
- NicheNet: predict active ligand-target links between interacting cells☆630Nov 12, 2025Updated 4 months ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆145Apr 5, 2024Updated last year
- Interactively analyze single cell genomic data☆186Jan 14, 2026Updated 2 months ago
- Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data☆151Feb 13, 2025Updated last year
- Reference mapping for single-cell genomics☆400Dec 2, 2025Updated 3 months ago
- Conversion between scRNA-seq objects☆203Jan 12, 2026Updated 2 months ago
- Multi-sample multi-group scRNA-seq analysis tools☆221Mar 8, 2026Updated 2 weeks ago