ddPCRclust
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see ddPCRclust.
Clustering algorithm for ddPCR data
Bioconductor version: 3.9
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("ddPCRclust")):
Installation
To install this package, start R (version "3.6") 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 | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Clustering, Software, ddPCR |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.7 (R-3.5) (6 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 |
See More
| Suggests | BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ddPCRclust_1.4.0.tar.gz |
| Windows Binary | ddPCRclust_1.4.0.zip |
| Mac OS X 10.11 (El Capitan) | ddPCRclust_1.4.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ddPCRclust |
| Source Repository (Developer Access) | git clone [email protected]:packages/ddPCRclust |
| Bioc Package Browser | https://code.bioconductor.org/browse/ddPCRclust/ |
| Package Short Url | https://bioconductor.org/packages/ddPCRclust/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |