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cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
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Carmen Bravo
Latest commit 29abd8d Aug 8, 2019

README.md

News

  • 2019-7-3:
    • Liftover vignettes for mm10 and hg38 genome assemblies.

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

cisTopic is an R-package to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.

Dependencies (for R < 3.5)

The following packages have to be installed manually before installing cisTopic:

devtools::install_github("aertslab/RcisTarget")
devtools::install_github("aertslab/AUCell")

Installation

For installing and loading cisTopic, run:

devtools::install_github("aertslab/cisTopic")
library(cisTopic)

Databases

RcisTarget feather databases are available at https://resources.aertslab.org/cistarget/.

Tutorials

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