ddPCRclust

This is the released version of ddPCRclust; for the devel version, see ddPCRclust.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7

Clustering algorithm for ddPCR data

Bioconductor version: Release (3.23)

The ddPCRclust algorithm can automatically quantify the CPDs of non-orthogonal ddPCR reactions with up to four targets. In order to determine the correct droplet count for each target, it is crucial to both identify all clusters and label them correctly based on their position. For more information on what data can be analyzed and how a template needs to be formatted, please check the vignette.

Author: Benedikt G. Brink [aut, cre], Justin Meskas [ctb], Ryan R. Brinkman [ctb]

Maintainer: Benedikt G. Brink <bbrink at cebitec.uni-bielefeld.de>

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

Benedikt G. Brink. ddPCRclust: Clustering algorithm for ddPCR data. doi:10.18129/B9.bioc.ddPCRclust, R package version 1.32.0, https://bioconductor.org/packages/ddPCRclust.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("ddPCRclust")

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

Documentation

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

browseVignettes("ddPCRclust")

Bioconductor LaTeX Style	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Clustering, Software, ddPCR
Version	1.32.0
In Bioconductor since	BioC 3.7 (R-3.5) (8.5 years)
License	Artistic-2.0
Depends	R (>= 3.5)
Imports	plotrix, clue, parallel, ggplot2, openxlsx, R.utils, flowCore, flowDensity (>= 1.13.3), SamSPECTRAL, flowPeaks
System Requirements
URL	https://github.com/bgbrink/ddPCRclust
Bug Reports	https://github.com/bgbrink/ddPCRclust/issues

Suggests	BiocStyle
Linking To
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Suggests Me	Polytect
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Build Report	Build Report, r-universe

Package Archives

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

Source Package	ddPCRclust_1.32.0.tar.gz
Windows Binary (x86_64)	ddPCRclust_1.32.0.zip
macOS Binary (big-sur-x86_64)	ddPCRclust_1.32.0.tgz
macOS Binary (sonoma-arm64)	ddPCRclust_1.32.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ddPCRclust
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ddPCRclust
Package Short Url	https://bioconductor.org/packages/ddPCRclust/
Package Downloads Report	Download Stats