flowFlowJo: Tools for extracting information from a FlowJo workspace and working with the data in the flowCore paradigm.

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FlowJo is a commercial GUI based software package from TreeStar Inc. for the visualization and analysis of flow cytometry data. One of the FlowJo standard export file types is the "FlowJo Workspace". This is an XML document that describes files and manipulations that have been performed in the FlowJo GUI environment. This package can take apart the FlowJo workspace and deliver the data into R in the flowCore paradigm.

Author
John J. Gosink <gosinkj@amgen.com>
Date of publication
None
Maintainer
John J. Gosink <gosinkj@amgen.com>
License
GPL (>=3)
Version
1.22.0

View on Bioconductor

Man pages

collectSummaryFlowInfo
Collect Population Statistics on Flow Files
createFlowReport
Produce a denormalized data frame of summary statistics and...
flowFlowJo-package
Turn FlowJo workspaces into flowCore compliant objects
flowJoCompensate-methods
Compensate flow cytometry data the same way as FlowJo does
getFlowJoGates
getFlowJoGates
getFlowJoSummary
Summarize FlowJo Workspaces
readFlowJoList
Parse one or more FlowJo workspaces
simplifyGateNames
Standardize flow cytometry gate names

Files in this package

flowFlowJo/DESCRIPTION
flowFlowJo/NAMESPACE
flowFlowJo/R
flowFlowJo/R/AllClasses.R
flowFlowJo/R/AllGenerics.R
flowFlowJo/R/collectSummaryFlowInfo.R
flowFlowJo/R/createFlowReport.R
flowFlowJo/R/flowJoCompensate.R
flowFlowJo/R/gateNodeToFilterObject.R
flowFlowJo/R/gatherFlowJoGates.R
flowFlowJo/R/gatherFlowJoTransformations.R
flowFlowJo/R/getFlowJoCompMatrix.R
flowFlowJo/R/getFlowJoGates.R
flowFlowJo/R/getFlowJoSummary.R
flowFlowJo/R/getFlowJoVersion.R
flowFlowJo/R/getWellId.R
flowFlowJo/R/readFlowJoFile.R
flowFlowJo/R/readFlowJoList.R
flowFlowJo/R/simplifyGateNames.R
flowFlowJo/R/zzz.R
flowFlowJo/build
flowFlowJo/build/vignette.rds
flowFlowJo/inst
flowFlowJo/inst/doc
flowFlowJo/inst/doc/flowFlowJo.R
flowFlowJo/inst/doc/flowFlowJo.Rnw
flowFlowJo/inst/doc/flowFlowJo.pdf
flowFlowJo/inst/extdata
flowFlowJo/inst/extdata/DemoWorkspace.wsp
flowFlowJo/inst/extdata/fcsFiles
flowFlowJo/inst/extdata/fcsFiles/A01
flowFlowJo/inst/extdata/fcsFiles/A02
flowFlowJo/inst/extdata/fcsFiles/A03
flowFlowJo/inst/extdata/fcsFiles/B01
flowFlowJo/inst/extdata/fcsFiles/B02
flowFlowJo/inst/extdata/fcsFiles/B03
flowFlowJo/inst/extdata/fcsFiles/C01
flowFlowJo/inst/extdata/fcsFiles/C02
flowFlowJo/inst/extdata/fcsFiles/C03
flowFlowJo/man
flowFlowJo/man/collectSummaryFlowInfo.Rd
flowFlowJo/man/createFlowReport.Rd
flowFlowJo/man/flowFlowJo-package.Rd
flowFlowJo/man/flowJoCompensate-methods.Rd
flowFlowJo/man/getFlowJoGates.Rd
flowFlowJo/man/getFlowJoSummary.Rd
flowFlowJo/man/readFlowJoList.Rd
flowFlowJo/man/simplifyGateNames.Rd
flowFlowJo/vignettes
flowFlowJo/vignettes/flowFlowJo.Rnw