PoDCall: positive droplet calling and normalization of droplet digital PCR DNA methylation data.

ABSTRACT:

Motivation

Droplet digital PCR (ddPCR) holds great promises for investigating DNA methylation with high sensitivity. Yet, the lack of methods for analyzing ddPCR DNA methylation data has resulted in users processing the data manually at the expense of standardization.

Results

PoDCall is an R package performing automated calling of positive droplets, quantification and normalization of methylation levels in ddPCR experiments. A Shiny application provides users with an intuitive and interactive interface to access PoDCall functionalities.

Availability and implementation

The PoDCall R package is freely available on Bioconductor at https://bioconductor.org/packages/PoDCall/. The Shiny application can be executed from the R console using the wrapper function PoDCall::podca

SUBMITTER: Jeanmougin M 

PROVIDER: S-EPMC9825742 | biostudies-literature | 2023 Jan

REPOSITORIES: biostudies-literature