openCyto
Hierarchical Gating Pipeline for flow cytometry data
Bioconductor version: 3.23 · Package version: 2.24.0
This package is designed to facilitate the automated gating methods in sequential way to mimic the manual gating strategy.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("openCyto")Details
| Maintainer | Mike Jiang <mike@ozette.com> |
| Author | Mike Jiang, John Ramey, Greg Finak, Raphael Gottardo |
| License | AGPL-3.0-only |
| Downloads rank | 1384 |
| Source branch | RELEASE_3_23 |
| biocViews | DataImport, DataRepresentation, FlowCytometry, ImmunoOncology, Preprocessing, Software |
Documentation
- An Introduction to the openCyto package
- OpenCyto: How to use different auto gating functions
- How to write a csv gating template
Download
Dependencies
Depends: R (>= 3.5.0)
Imports: methods, Biobase, BiocGenerics, flowCore (>= 1.99.17), flowViz, ncdfFlow (>= 2.11.34), flowWorkspace (>= 3.99.1), flowClust (>= 3.11.4), RBGL, graph, data.table, RColorBrewer, grDevices
LinkingTo: cpp11, BH (>= 1.62.0-1)
Suggests: flowWorkspaceData, knitr, rmarkdown, markdown, testthat, utils, tools, parallel, ggcyto, CytoML, flowStats (>= 4.5.2), MASS