Package: flowWorkspace
Type: Package
Title: Infrastructure for representing and interacting with gated and
        ungated cytometry data sets.
Version: 4.14.0
Date: 2011-06-10
Author: Greg Finak, Mike Jiang
Maintainer: Greg Finak <greg@ozette.com>, Mike Jiang <mike@ozette.com>
Description: This package is designed to facilitate comparison of automated
    gating methods against manual gating done in flowJo. This package allows
    you to import basic flowJo workspaces into BioConductor and replicate the
    gating from flowJo using the flowCore functionality. Gating hierarchies,
    groups of samples, compensation, and transformation are performed so that
    the output matches the flowJo analysis.
License: AGPL-3.0-only
License_restricts_use: no
LazyLoad: yes
Imports: Biobase, BiocGenerics, cytolib (>= 2.13.1), XML, ggplot2,
        graph, graphics, grDevices, methods, stats, stats4, utils,
        RBGL, tools, Rgraphviz, data.table, dplyr, scales, matrixStats,
        RProtoBufLib, flowCore(>= 2.1.1), ncdfFlow(>= 2.25.4),
        DelayedArray, S4Vectors
Collate: 'cytoframe.R' 'cytoset.R' 'AllClasses.R' 'getStats.R'
        'GatingHierarchy_Methods.R' 'GatingSet_Methods.R'
        'GatingSetList_Methods.R' 'filterObject_Methods.R'
        'add_Methods.R' 'copyNode.R' 'cpp11.R' 'deprecated.R'
        'flow_trans.R' 'getDescendants.R' 'getSingleCellExpression.R'
        'identifier.R' 'load_fcs.R' 'load_gs.R' 'merge_GatingSet.R'
        'merge_gslist.R' 'moveNode.R' 'parse_transformer.R'
        'setGate_Methods.R' 'updateIndices.R' 'utils.R' 'zzz.R'
Suggests: testthat, flowWorkspaceData (>= 2.23.2), knitr, rmarkdown,
        ggcyto, parallel, CytoML, openCyto
LinkingTo: cpp11, BH(>= 1.62.0-1), RProtoBufLib(>= 1.99.4), cytolib (>=
        2.3.7),Rhdf5lib
VignetteBuilder: knitr
biocViews: ImmunoOncology, FlowCytometry, DataImport, Preprocessing,
        DataRepresentation
SystemRequirements: GNU make, C++11
Encoding: UTF-8
RoxygenNote: 7.2.3
git_url: https://git.bioconductor.org/packages/flowWorkspace
git_branch: RELEASE_3_18
git_last_commit: e9a6f2a
git_last_commit_date: 2023-10-24
Date/Publication: 2023-10-24
NeedsCompilation: yes
Packaged: 2023-10-24 21:17:17 UTC; biocbuild
Depends: R (>= 3.5.0)
Built: R 4.3.2; x86_64-apple-darwin13.4.0; 2023-12-11 02:14:34 UTC; unix
