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This is the development version of twoddpcr; for the stable release version, see twoddpcr.

Classify 2-d Droplet Digital PCR (ddPCR) data and quantify the number of starting molecules

Bioconductor version: Development (3.20)

The twoddpcr package takes Droplet Digital PCR (ddPCR) droplet amplitude data from Bio-Rad's QuantaSoft and can classify the droplets. A summary of the positive/negative droplet counts can be generated, which can then be used to estimate the number of molecules using the Poisson distribution. This is the first open source package that facilitates the automatic classification of general two channel ddPCR data. Previous work includes 'definetherain' (Jones et al., 2014) and 'ddpcRquant' (Trypsteen et al., 2015) which both handle one channel ddPCR experiments only. The 'ddpcr' package available on CRAN (Attali et al., 2016) supports automatic gating of a specific class of two channel ddPCR experiments only.

Author: Anthony Chiu [aut, cre]

Maintainer: Anthony Chiu <anthony at>

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


To install this package, start R (version "4.4") and enter:

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

# The following initializes usage of Bioc devel


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:

twoddpcr: A package for Droplet Digital PCR analysis HTML R Script
Reference Manual PDF


biocViews Classification, Software, ddPCR
Version 1.29.0
In Bioconductor since BioC 3.5 (R-3.4) (7 years)
License GPL-3
Depends R (>= 3.4)
Imports class, ggplot2, hexbin, methods, scales, shiny, stats, utils, RColorBrewer, S4Vectors
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Suggests devtools, knitr, reshape2, rmarkdown, testthat, BiocStyle
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Source Package twoddpcr_1.29.0.tar.gz
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