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EpiScanpy – Epigenomics single cell analysis in python

EpiScanpy is a toolkit to analyse single-cell open chromatin (scATAC-seq) and single-cell DNA methylation (for example scBS-seq) data. EpiScanpy is the epigenomic extension of the very popular scRNA-seq analysis tool Scanpy (Genome Biology, 2018) [Wolf18]. For more information on scanpy, read the following documentation.

EpiScanpy paper is now accessible on Nature Communications. For more information on how to use the package, more information are available on the website.

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The documentation for epiScanpy is available here. If epiScanpy is useful to your research, consider citing epiScanpy.