Monocle 3 and Cicero for single-cell ATAC-seq data

For users who would like to analyze single-cell ATAC-seq data, we have a companion R package called Cicero. Cicero adapts the analyses of Monocle 3 and also allows the prediction of cis-regulatory interactions from single-cell chromatin accessibility. Details about Cicero are available on the Cicero website.

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