CytoML
This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see CytoML.
A GatingML Interface for Cross Platform Cytometry Data Sharing
Bioconductor version: 3.10
Uses platform-specific implemenations of the GatingML2.0 standard to exchange gated cytometry data with other software platforms.
Author: Mike Jiang, J. Spidlen., N. Gopalakrishnan, F. Hahne, B. Ellis, R. Gentleman, M. Dalphin, N. Le Meur, B. Purcell
Maintainer: Mike Jiang <wjiang2 at fhcrc.org>
citation("CytoML")):
Installation
To install this package, start R (version "3.6") 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")| How to export a GatingSet to GatingML | HTML | R Script |
| How to import Cytobank into a GatingSet | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, DataRepresentation, FlowCytometry, ImmunoOncology, Software |
| Version | 1.12.1 |
| In Bioconductor since | BioC 3.4 (R-3.3) (7.5 years) |
| License | Artistic-2.0 |
| Depends | |
| Imports | flowCore(>= 1.43.10), flowWorkspace(>= 3.33.10), openCyto(>= 1.11.3), XML, data.table, jsonlite, RBGL, ncdfFlow, Rgraphviz, Biobase, methods, graph, graphics, utils, base64enc, plyr, dplyr, grDevices, methods, ggcyto(>= 1.11.4), yaml, lattice, stats, corpcor, RUnit |
| 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(>= 2.11.1), knitr, parallel |
| Linking To | Rcpp, BH (>= 1.62.0-1), RProtoBufLib(>= 1.3.7), cytolib(>= 1.3.3), RcppParallel |
| Enhances | |
| Depends On Me | |
| Imports Me | FlowSOM |
| Suggests Me | 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_1.12.1.tar.gz |
| Windows Binary | CytoML_1.12.1.zip |
| Mac OS X 10.11 (El Capitan) | CytoML_1.12.1.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 |
| Old Source Packages for BioC 3.10 | Source Archive |