ddPCRclust

DOI: 10.18129/B9.bioc.ddPCRclust  

Clustering algorithm for ddPCR data

Bioconductor version: Release (3.16)

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>

Installation

To install this package, start R (version "4.2") 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")

 

PDF	R Script	Bioconductor LaTeX Style
PDF		Reference Manual
Text		NEWS

Details

biocViews	Clustering, Software, ddPCR
Version	1.18.0
In Bioconductor since	BioC 3.7 (R-3.5) (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
LinkingTo
Suggests	BiocStyle
SystemRequirements
Enhances
URL	https://github.com/bgbrink/ddPCRclust
BugReports	https://github.com/bgbrink/ddPCRclust/issues
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	ddPCRclust_1.18.0.tar.gz
Windows Binary	ddPCRclust_1.18.0.zip
macOS Binary (x86_64)	ddPCRclust_1.18.0.tgz
macOS Binary (arm64)	ddPCRclust_1.18.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ddPCRclust
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ddPCRclust
Bioc Package Browser	https://code.bioconductor.org/browse/ddPCRclust/
Package Short Url	https://bioconductor.org/packages/ddPCRclust/
Package Downloads Report	Download Stats