PoDCall: positive droplet calling and normalization of droplet digital PCR DNA methylation data.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 36448696.
- Also identified by DOI 10.1093/bioinformatics/btac766 and PMC identifier 9825742.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
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. 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. 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::podcallShiny(). Supplementary data are available at Bioinformatics online.
Medical subject headings
- Software
- DNA Methylation