Signac

Overview

Signac is a comprehensive R package for the analysis of single-cell chromatin data. Signac includes functions for quality control, normalization, dimension reduction, clustering, differential activity, and more.

Documentation and tutorials can be found at https://satijalab.org/signac/

Installation

Signac requires that Bioconductor is installed:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install()
setRepositories(ind=1:2)

To install the latest release of Signac from CRAN:

install.packages("Signac")

To release the latest develop version from GitHub:

if (!requireNamespace("remotes", quietly = TRUE))
    install.packages("remotes")
remotes::install_github("timoast/signac", ref = "develop")

Release notes

For a changelog please see the NEWS file, also available on the Signac website.

Getting help

If you encounter a bug or have a feature request, please open an issue.

If you would like to discuss questions related to single-cell analysis, you can open a discussion.

Citing Signac

If you use the Signac package in your work please cite Stuart et al. 2020

@UNPUBLISHED{signac,
  title    = "Multimodal single-cell chromatin analysis with Signac",
  author   = "Stuart, Tim and Srivastava, Avi and Lareau, Caleb and Satija,
              Rahul",
  journal  = "bioRxiv",
  pages    = "2020.11.09.373613",
  month    =  nov,
  year     =  2020,
  url      = "https://www.biorxiv.org/content/10.1101/2020.11.09.373613v1",
  language = "en"
}