CompensAID
This is the development version of CompensAID; to use it, please install the devel version of Bioconductor.
Automated detection tool for spillover errors
Bioconductor version: Development (3.23)
The CompensAID is an automated quality control tool, which determines for each marker combination in the FCS file, whether there a potential presence of reference errors. Such reference errors, which represent themselves in the form of skewed populations, are detected by integrating the Secondary Stain Index (SSI) score. Marker combinations with an SSI < 1 are flagged by CompensAID.
Author: Rosan Olsman [aut, cre]
, Sarah Bonte [aut]
, Mattias Hofmans [aut]
, Malicorne Buysse [aut], Katrien Van der Borght [aut]
, Yvan Saeys [aut]
, Vincent van der Velden [aut]
, Sofie Van Gassen [aut]
Maintainer: Rosan Olsman <r.olsman at erasmusmc.nl>
citation("CompensAID")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("CompensAID")
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("CompensAID")| Overview_CompensAID | HTML | R Script |
| Reference Manual |
Details
| biocViews | FlowCytometry, Preprocessing, QualityControl, Software |
| Version | 0.99.6 |
| In Bioconductor since | BioC 3.23 (R-4.6) |
| License | GPL (>= 3) |
| Depends | R (>= 4.1.0) |
| Imports | checkmate, dplyr, flowCore, flowDensity, ggcyto, ggplot2 (>= 3.5.2), methods, ParallelLogger, reshape2, rlang, stats, tibble, tidyr, utils |
| System Requirements | |
| URL | https://github.com/Olsman/CompensAID |
| Bug Reports | https://github.com/Olsman/CompensAID/issues |
See More
| Suggests | knitr, rmarkdown, testthat (>= 3.0.0), 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 | CompensAID_0.99.6.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | CompensAID_0.99.6.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/CompensAID |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CompensAID |
| Bioc Package Browser | https://code.bioconductor.org/browse/CompensAID/ |
| Package Short Url | https://bioconductor.org/packages/CompensAID/ |
| Package Downloads Report | Download Stats |