cisTopic

epigenomics analysis tool

An R package for identifying cell states and cis-regulatory topics from single-cell epigenomics data

cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data

GitHub

135 stars
13 watching
29 forks
Language: HTML
last commit: 8 months ago
Linked from 1 awesome list


Backlinks from these awesome lists:

Related projects:

Repository Description Stars
colomemaria/episcanpy A toolkit for analyzing single-cell epigenomics data from open chromatin and DNA methylation experiments. 141
aertslab/scenic A tool for inferring Gene Regulatory Networks and cell types from single-cell RNA-seq data 420
kharchenkolab/numbat Analyzes single-cell RNA-seq data to detect allele-specific copy number variations and infer lineage relationships in cancer cells 166
aertslab/scope A tool for fast visualization of large-scale single-cell data 68
dmcable/spacexr Software package for cell type identification and differential expression in spatial transcriptomics 312
ucarlab/iasva An R package that identifies hidden factors in data to uncover sources of variation 8
zjufanlab/sccatch Automated tool for annotating cell types from single-cell RNA sequencing data based on marker genes 218
pachterlab/cwgflhgcchap_2021 Analyzing multiplexed single-cell RNA-seq data from a marine organism, providing tools for preprocessing, clustering, and analysis of gene expression across different cell types. 2
aertslab/scenicplus Builds gene regulatory networks from single-cell gene expression and chromatin accessibility data 184
eskelandlab/shinyarchruio An R-based web application for visualizing massive single-cell chromatin accessibility data using ArchR 18
euxhenh/cellar An interactive software tool for analyzing single-cell omics data 31
dtm2451/dittoseq A suite of functions for analyzing and visualizing RNA sequencing data 190
epurdom/clusterexperiment A package providing tools for comparing and analyzing clusterings of single-cell sequencing data 37
eiriniar/cellcnn A Python-based software framework for analyzing mass/flow cytometry data to identify phenotype-associated cell subsets. 65
cbg-ethz/netics Tools for integrating multi-omics data to prioritize cancer genes 15