polyICSFlow
Identifying the Frequency of Polyfunctional Antigen-Specific T cells in ICS Flow Cytometry Data
Bioconductor version: 3.24 · Package version: 0.99.6
polyICSFlow systematically identifies all cytokine combinations detected in an intracellular cytokine staining (ICS) flow cytometry assay and quantifies polyfunctional antigen-specific responses to single or multiple antigens. The package also offers versatile plotting options for efficient data exploration and visualization of cytokine co-expression profiles.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("polyICSFlow")Details
| Maintainer | Lisa Loksø Dietz <lisdie@clin.au.dk> |
| Author | Lisa Loksø Dietz [aut, cre] (ORCID: <https://orcid.org/0000-0002-1797-5766>), Sofie Van Gassen [aut] (ORCID: <https://orcid.org/0000-0002-7119-5330>), Sarah Bonte [aut] (ORCID: <https://orcid.org/0000-0002-0637-4893>), Yvan Saeys [aut] (ORCID: <https://orcid.org/0000-0002-0415-1506>), Ole Schmeltz Søgaard [aut] (ORCID: <https://orcid.org/0000-0001-9107-2023>) |
| License | GPL (>=2) |
| URL | https://github.com/SoegaardLab/polyICSFlow |
| Bug Reports | https://github.com/SoegaardLab/polyICSFlow/issues |
| Source branch | devel |
| biocViews | FlowCytometry, Immunology, SingleCell, Software |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | polyICSFlow_0.99.6.tar.gz |
| Windows binary (x86_64) | polyICSFlow_0.99.6.zip |
| macOS binary (arm64) | polyICSFlow_0.99.6.tgz |
| macOS binary (x86_64) | polyICSFlow_0.99.6.tgz |
Dependencies
Depends: R (>= 3.5.0)
Imports: flowCore, flowWorkspace, openCyto, FlowSOM, ComplexHeatmap, SummarizedExperiment, cowplot, dplyr, forcats, ggtext, rlang, scales, stringr, tidyselect, tidyr, magrittr, ggplot2, methods
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), patchwork, ggh4x