DOI: 10.18129/B9.bioc.PoDCall  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see PoDCall.

Positive Droplet Calling for DNA Methylation Droplet Digital PCR

Bioconductor version: 3.17

Reads files exported from 'QuantaSoft' containing amplitude values from a run of ddPCR (96 well plate) and robustly sets thresholds to determine positive droplets for each channel of each individual well. Concentration and normalized concentration in addition to other metrics is then calculated for each well. Results are returned as a table, optionally written to file, as well as optional plots (scatterplot and histogram) for both channels per well written to file. The package includes a shiny application which provides an interactive and user-friendly interface to the full functionality of PoDCall.

Author: Hans Petter Brodal [aut, cre], Marine Jeanmougin [aut], Guro Elisabeth Lind [aut]

Maintainer: Hans Petter Brodal <hans.petter.brodal at rr-research.no>

Citation (from within R, enter citation("PoDCall")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script PoDCall: Positive Droplet Caller for DNA Methylation ddPCR
PDF   Reference Manual
Text   NEWS


biocViews Classification, CpGIsland, DNAMethylation, DifferentialMethylation, Epigenetics, Software, ddPCR
Version 1.8.0
In Bioconductor since BioC 3.13 (R-4.1) (2.5 years)
License GPL-3
Depends R (>= 4.3)
Imports ggplot2, gridExtra, mclust, diptest, rlist, shiny, DT, LaplacesDemon, purrr, shinyjs, readr, grDevices, stats, utils
Suggests knitr, rmarkdown, testthat, BiocStyle
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package PoDCall_1.8.0.tar.gz
Windows Binary PoDCall_1.8.0.zip
macOS Binary (x86_64) PoDCall_1.8.0.tgz
macOS Binary (arm64) PoDCall_1.8.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/PoDCall
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/PoDCall
Bioc Package Browser https://code.bioconductor.org/browse/PoDCall/
Package Short Url https://bioconductor.org/packages/PoDCall/
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: