Signac is an extension of Seurat for the analysis, interpretation, and exploration of single-cell chromatin datasets.
Signac is currently focused on the analysis of single-cell ATAC-seq data, but new features will be added as experimental methods for measuring other chromatin-based modalities at single-cell resolution become more widespread. Signac is under active development, and the software supports the following features:
Please see the Signac vignettes page for examples.
To use Signac first make sure Bioconductor is installed:
# Install bioconductor if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install() # Tell R to also check bioconductor when installing dependencies setRepositories(ind=1:2)
Next install Signac using
For information about installing Seurat, see the Seurat website
It can also be useful (but not essential) to install species-specific packages from bioconductor: