flowAI
This is the released version of flowAI; for the devel version, see flowAI.
Automatic and interactive quality control for flow cytometry data
Bioconductor version: Release (3.23)
The package is able to perform an automatic or interactive quality control on FCS data acquired using flow cytometry instruments. By evaluating three different properties: 1) flow rate, 2) signal acquisition, 3) dynamic range, the quality control enables the detection and removal of anomalies.
Author: Gianni Monaco [aut], Chen Hao [ctb]
Maintainer: Gianni Monaco <mongianni1 at gmail.com>
citation("flowAI")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("flowAI")
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("flowAI")| Automatic and GUI methods to do quality control on Flow cytometry Data | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BiomedicalInformatics, FlowCytometry, ImmunoOncology, QualityControl, Software |
| Version | 1.42.0 |
| In Bioconductor since | BioC 3.3 (R-3.3) (10.5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 4.3.0) |
| Imports | ggplot2, flowCore, plyr, changepoint, knitr, reshape2, RColorBrewer, scales, methods, graphics, stats, utils, rmarkdown |
| System Requirements | |
| URL |
See More
| Suggests | testthat, shiny, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | CytoPipeline |
| Suggests Me | staRgate |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | flowAI_1.42.0.tar.gz |
| Windows Binary (x86_64) | flowAI_1.42.0.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | flowAI_1.42.0.tgz |
| macOS Binary (sonoma-arm64) | flowAI_1.42.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/flowAI |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/flowAI |
| Bioc Package Browser | https://code.bioconductor.org/browse/flowAI/ |
| Package Short Url | https://bioconductor.org/packages/flowAI/ |
| Package Downloads Report | Download Stats |