CytoML
A GatingML Interface for Cross Platform Cytometry Data Sharing
Bioconductor version: Release (3.19)
Uses platform-specific implemenations of the GatingML2.0 standard to exchange gated cytometry data with other software platforms.
Author: Mike Jiang, Jake Wagner
Maintainer: Mike Jiang <mike at ozette.com>
Citation (from within R, enter
citation("CytoML")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CytoML")
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("CytoML")
flowJo parser | HTML | R Script |
How to export a GatingSet to GatingML | HTML | R Script |
How to import Cytobank into a GatingSet | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | DataImport, DataRepresentation, FlowCytometry, ImmunoOncology, Software |
Version | 2.16.0 |
In Bioconductor since | BioC 3.4 (R-3.3) (8 years) |
License | AGPL-3.0-only |
Depends | R (>= 3.5.0) |
Imports | cytolib(>= 2.3.10), flowCore(>= 1.99.10), flowWorkspace(>= 4.1.8), openCyto(>= 1.99.2), XML, data.table, jsonlite, RBGL, Rgraphviz, Biobase, methods, graph, graphics, utils, jsonlite, dplyr, grDevices, methods, ggcyto(>= 1.11.4), yaml, stats, tibble |
System Requirements | xml2, GNU make, C++11 |
URL | https://github.com/RGLab/CytoML |
Bug Reports | https://github.com/RGLab/CytoML/issues |
See More
Suggests | testthat, flowWorkspaceData, knitr, rmarkdown, parallel |
Linking To | cpp11, BH (>= 1.62.0-1), RProtoBufLib, cytolib, Rhdf5lib, flowWorkspace |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | FlowSOM, flowWorkspace, openCyto |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | CytoML_2.16.0.tar.gz |
Windows Binary | CytoML_2.16.0.zip |
macOS Binary (x86_64) | CytoML_2.16.0.tgz |
macOS Binary (arm64) | CytoML_2.16.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/CytoML |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CytoML |
Bioc Package Browser | https://code.bioconductor.org/browse/CytoML/ |
Package Short Url | https://bioconductor.org/packages/CytoML/ |
Package Downloads Report | Download Stats |