flowWorkspace: Infrastructure for representing and interacting with the gated cytometry

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.

Author
Greg Finak, Mike Jiang
Date of publication
None
Maintainer
Greg Finak <gfinak@fhcrc.org>,Mike Jiang <wjiang2@fhcrc.org>
License
Artistic-2.0
Version
3.20.1

View on Bioconductor

Man pages

add
Create a GatingSet and add/remove the flowCore gate(or...
asinh_Gml2
inverse hyperbolic sine transform function generator...
asinhtGml2_trans
Inverse hyperbolic sine transformation.
booleanFilter-class
A class describing logical operation (& or |) of the...
checkRedundantNodes
try to determine the redundant terminal(or leaf) nodes that...
clone
clone a GatingSet
compensate
compensate the flow data asssociated with the GatingSet
dropRedundantChannels
Remove the channels from flow data that are not used by gates
dropRedundantNodes
Remove the terminal leaf nodes that make the gating trees to...
estimateLogicle.GatingHierarchy
Compute logicle transformation from the flowData associated...
filterObject
convert flowCore filter to a list It convert the flowCore...
flow_breaks
Generate the breaks that makes sense for flow data...
flowData
Fetch or replace the flowData object associated with a...
flowJo_biexp_trans
flowJo biexponential transformation.
flowJo.fasinh
inverse hyperbolic sine transform function
flowJo_fasinh_trans
flowJo inverse hyperbolic sine transformation.
flowJoTrans
construct the flowJo-type biexponentioal transformation...
flowJoWorkspace-class
An R representation of a flowJo workspace.
flow_trans
helper function to generate a trans objects Used by other...
flowWorkspace-package
Import and replicate flowJo workspaces and gating schemes...
flowWorkspace.par.get
flowWorkspace.par.set sets a set of parameters in the...
flowWorkspace.par.init
workspace version is parsed from xml node...
GatingHierarchy-class
Class GatingHierarchy
GatingSet-class
Class '"GatingSet"'
GatingSetList-class
Class '"GatingSetList"'
GatingSet-methods
constructors for GatingSet
getCompensationMatrices
Retrieve the compensation matrices from a GatingHierarchy
getData-methods
get gated flow data from a...
getFJWSubsetIndices
Fetch the indices for a subset of samples in a flowJo...
getGate
Return the flowCore gate definition associated with a node in...
getIndiceMat
Return the single-cell matrix of 1/0 dichotomized expression
getIndices
Get the membership indices for each event with respect to a...
getIndices-GatingSet-name-method
routine to return the indices by specify boolean combination...
getKeywords
Get Keywords
getNodes
Get the names of all nodes from a gating hierarchy.
getParent
Return the name of the parent population or a list of child...
getPopStats
Return a table of population statistics for all populations...
getSampleGroups
Get a table of sample groups from a flowJo workspace
getSamples
Get a list of samples from a flowJo workspace
getSingleCellExpression
Return the cell events data that express in any of the single...
getTransformations
Return a list of transformations or a transformation in a...
groupByChannels
split GatingSets into groups based on their flow channels
groupByTree
split GatingSets into groups based on their gating schemes Be...
insertGate
insert a dummy gate to the GatingSet
isNcdf
determine the flow data associated with a Gating Hiearchy is...
keyword
Retrieve a specific keyword for a specific sample in a...
lapply-methods
apply 'FUN' to each sample (i.e. 'GatingHierarchy')
length
Methods to get the length of a GatingSet
logicleGml2_trans
GatingML2 version of logicle transformation.
logicle_trans
logicle transformation.
loglevel
get/set the log level
markernames
Get/set the column(channel) or marker names
mkformula
make a formula from a character vector
ncFlowSet-methods
Fetch the flowData object associated with a GatingSet .
openWorkspace
Open/Close a flowJo workspace
parseWorkspace
Parse a flowJo Workspace
pData-methods
read/set pData of flow data associated with 'GatingSet' or...
plotGate-methods
Plot gates and associated cell population contained in a...
plot-methods
plot a gating tree
plotPopCV
Plot the coefficient of variation between flowJo and flowCore...
prettyAxis
Determine tick mark locations and labels for a given channel...
recompute
Compute the cell events by the gates stored within the gating...
sampleNames
Get/update sample names in a GatingSet
save_gs
save/load a GatingSet/GatingSetList to/from disk.
setGate
update the gate
setNode-methods
Update the name of one node in a gating hierarchy/GatingSet.
standardize-GatingSet
The tools to standardize the tree structures and channel...
subset
subset the GatingSet/GatingSetList based on 'pData'
transform
tranform the flow data asssociated with the GatingSet
transformerList
Constructor for transformerList object
updateChannels
Update the channel information of a GatingSet (c++ part)

Files in this package

flowWorkspace/DESCRIPTION
flowWorkspace/INSTALL
flowWorkspace/NAMESPACE
flowWorkspace/R
flowWorkspace/R/AllClasses.R
flowWorkspace/R/AllGenerics.R
flowWorkspace/R/GatingHierarchy_Methods.R
flowWorkspace/R/GatingSetList_Methods.R
flowWorkspace/R/GatingSet_Methods.R
flowWorkspace/R/RcppExports.R
flowWorkspace/R/add_Methods.R
flowWorkspace/R/filterObject_Methods.R
flowWorkspace/R/flowJoWorkspace_Methods.R
flowWorkspace/R/flow_trans.R
flowWorkspace/R/merge_GatingSet.R
flowWorkspace/R/setGate_Methods.R
flowWorkspace/R/utils.R
flowWorkspace/R/zzz.R
flowWorkspace/README.md
flowWorkspace/build
flowWorkspace/build/vignette.rds
flowWorkspace/cleanup
flowWorkspace/configure
flowWorkspace/configure.ac
flowWorkspace/example
flowWorkspace/inst
flowWorkspace/inst/NEWS
flowWorkspace/inst/cppTest
flowWorkspace/inst/cppTest/unitTest
flowWorkspace/inst/cppTest/unitTest/computeCalibrationTable.cpp
flowWorkspace/inst/cppTest/unitTest/cpConstructorTest.cpp
flowWorkspace/inst/cppTest/unitTest/gatingSet_test.cpp
flowWorkspace/inst/cppTest/unitTest/ncdfFlow.cpp
flowWorkspace/inst/cppTest/unitTest/ncdfFlow.hpp
flowWorkspace/inst/cppTest/unitTest/ncdf_test.cpp
flowWorkspace/inst/cppTest/unitTest/spline_test.cpp
flowWorkspace/inst/cppTest/unitTest/src.cpp
flowWorkspace/inst/cppTest/unitTest/testSuite.cpp
flowWorkspace/inst/cppTest/unitTest/test_header.hpp
flowWorkspace/inst/doc
flowWorkspace/inst/doc/HowToMergeGatingSet.R
flowWorkspace/inst/doc/HowToMergeGatingSet.Rmd
flowWorkspace/inst/doc/HowToMergeGatingSet.html
flowWorkspace/inst/doc/plotGate.R
flowWorkspace/inst/doc/plotGate.Rmd
flowWorkspace/inst/doc/plotGate.html
flowWorkspace/inst/extdata
flowWorkspace/inst/extdata/empty_workspace_9.2.xml
flowWorkspace/inst/include
flowWorkspace/inst/include/flowWorkspace
flowWorkspace/inst/include/flowWorkspace.h
flowWorkspace/inst/javascript
flowWorkspace/inst/javascript/showPlot.js
flowWorkspace/inst/tests
flowWorkspace/inst/tests/expect_result
flowWorkspace/man
flowWorkspace/man/GatingHierarchy-class.Rd
flowWorkspace/man/GatingSet-class.Rd
flowWorkspace/man/GatingSet-methods.Rd
flowWorkspace/man/GatingSetList-class.Rd
flowWorkspace/man/add.Rd
flowWorkspace/man/asinh_Gml2.Rd
flowWorkspace/man/asinhtGml2_trans.Rd
flowWorkspace/man/booleanFilter-class.Rd
flowWorkspace/man/checkRedundantNodes.Rd
flowWorkspace/man/clone.Rd
flowWorkspace/man/compensate.Rd
flowWorkspace/man/dropRedundantChannels.Rd
flowWorkspace/man/dropRedundantNodes.Rd
flowWorkspace/man/estimateLogicle.GatingHierarchy.Rd
flowWorkspace/man/filterObject.Rd
flowWorkspace/man/flowData.Rd
flowWorkspace/man/flowJo.fasinh.Rd
flowWorkspace/man/flowJoTrans.Rd
flowWorkspace/man/flowJoWorkspace-class.Rd
flowWorkspace/man/flowJo_biexp_trans.Rd
flowWorkspace/man/flowJo_fasinh_trans.Rd
flowWorkspace/man/flowWorkspace-package.Rd
flowWorkspace/man/flowWorkspace.par.get.Rd
flowWorkspace/man/flowWorkspace.par.init.Rd
flowWorkspace/man/flow_breaks.Rd
flowWorkspace/man/flow_trans.Rd
flowWorkspace/man/getCompensationMatrices.Rd
flowWorkspace/man/getData-methods.Rd
flowWorkspace/man/getFJWSubsetIndices.Rd
flowWorkspace/man/getGate.Rd
flowWorkspace/man/getIndiceMat.Rd
flowWorkspace/man/getIndices-GatingSet-name-method.Rd
flowWorkspace/man/getIndices.Rd
flowWorkspace/man/getKeywords.Rd
flowWorkspace/man/getNodes.Rd
flowWorkspace/man/getParent.Rd
flowWorkspace/man/getPopStats.Rd
flowWorkspace/man/getSampleGroups.Rd
flowWorkspace/man/getSamples.Rd
flowWorkspace/man/getSingleCellExpression.Rd
flowWorkspace/man/getTransformations.Rd
flowWorkspace/man/groupByChannels.Rd
flowWorkspace/man/groupByTree.Rd
flowWorkspace/man/insertGate.Rd
flowWorkspace/man/isNcdf.Rd
flowWorkspace/man/keyword.Rd
flowWorkspace/man/lapply-methods.Rd
flowWorkspace/man/length.Rd
flowWorkspace/man/logicleGml2_trans.Rd
flowWorkspace/man/logicle_trans.Rd
flowWorkspace/man/loglevel.Rd
flowWorkspace/man/markernames.Rd
flowWorkspace/man/mkformula.Rd
flowWorkspace/man/ncFlowSet-methods.Rd
flowWorkspace/man/openWorkspace.Rd
flowWorkspace/man/pData-methods.Rd
flowWorkspace/man/parseWorkspace.Rd
flowWorkspace/man/plot-methods.Rd
flowWorkspace/man/plotGate-methods.Rd
flowWorkspace/man/plotPopCV.Rd
flowWorkspace/man/prettyAxis.Rd
flowWorkspace/man/recompute.Rd
flowWorkspace/man/sampleNames.Rd
flowWorkspace/man/save_gs.Rd
flowWorkspace/man/setGate.Rd
flowWorkspace/man/setNode-methods.Rd
flowWorkspace/man/standardize-GatingSet.Rd
flowWorkspace/man/subset.Rd
flowWorkspace/man/transform.Rd
flowWorkspace/man/transformerList.Rd
flowWorkspace/man/updateChannels.Rd
flowWorkspace/src
flowWorkspace/src/GatingHierarchy.cpp
flowWorkspace/src/GatingSet.cpp
flowWorkspace/src/GatingSet.pb.cc
flowWorkspace/src/GatingSet.pb.h
flowWorkspace/src/GatingSet.proto
flowWorkspace/src/GatingSet_pb2.py
flowWorkspace/src/Makevars.in
flowWorkspace/src/Makevars.win
flowWorkspace/src/POPINDICES.cpp
flowWorkspace/src/R_API.cpp
flowWorkspace/src/R_GatingHierarchy.cpp
flowWorkspace/src/R_GatingSet.cpp
flowWorkspace/src/RcppExports.cpp
flowWorkspace/src/boost_serialization
flowWorkspace/src/boost_serialization/boost
flowWorkspace/src/boost_serialization/boost/archive
flowWorkspace/src/boost_serialization/boost/serialization
flowWorkspace/src/calibrationTable.cpp
flowWorkspace/src/compensation.cpp
flowWorkspace/src/delimitedMessage.cpp
flowWorkspace/src/flowData.cpp
flowWorkspace/src/flowJoWorkspace.cpp
flowWorkspace/src/gate.cpp
flowWorkspace/src/global.cpp
flowWorkspace/src/include
flowWorkspace/src/include/GatingHierarchy.hpp
flowWorkspace/src/include/GatingSet.hpp
flowWorkspace/src/include/POPINDICES.hpp
flowWorkspace/src/include/calibrationTable.hpp
flowWorkspace/src/include/compensation.hpp
flowWorkspace/src/include/delimitedMessage.hpp
flowWorkspace/src/include/flowData.hpp
flowWorkspace/src/include/flowJoWorkspace.hpp
flowWorkspace/src/include/gate.hpp
flowWorkspace/src/include/global.hpp
flowWorkspace/src/include/macFlowJoWorkspace.hpp
flowWorkspace/src/include/nodeProperties.hpp
flowWorkspace/src/include/populationTree.hpp
flowWorkspace/src/include/spline.hpp
flowWorkspace/src/include/transformation.hpp
flowWorkspace/src/include/winFlowJoWorkspace.hpp
flowWorkspace/src/include/workspace.hpp
flowWorkspace/src/include/wsNode.hpp
flowWorkspace/src/macFlowJoWorkspace.cpp
flowWorkspace/src/nodeProperties.cpp
flowWorkspace/src/pb_build
flowWorkspace/src/pb_build/Makefile
flowWorkspace/src/pb_build/config.h
flowWorkspace/src/pb_build/config.log
flowWorkspace/src/pb_build/config.status
flowWorkspace/src/pb_build/libtool
flowWorkspace/src/pb_build/protobuf-lite.pc
flowWorkspace/src/pb_build/protobuf.pc
flowWorkspace/src/pb_build/src
flowWorkspace/src/pb_build/src/.libs
flowWorkspace/src/pb_build/src/.libs/libprotobuf.la
flowWorkspace/src/pb_build/src/.libs/libprotobuf.lai
flowWorkspace/src/pb_build/src/.libs/libprotobuf.so
flowWorkspace/src/pb_build/src/.libs/libprotobuf.so.9
flowWorkspace/src/pb_build/src/.libs/libprotobuf.so.9.0.0
flowWorkspace/src/pb_build/src/Makefile
flowWorkspace/src/pb_build/src/google
flowWorkspace/src/pb_build/src/google/protobuf
flowWorkspace/src/pb_build/src/google/protobuf/.dirstamp
flowWorkspace/src/pb_build/src/google/protobuf/.libs
flowWorkspace/src/pb_build/src/google/protobuf/.libs/descriptor.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/descriptor.pb.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/descriptor_database.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/dynamic_message.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/extension_set.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/extension_set_heavy.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/generated_message_reflection.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/generated_message_util.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/message.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/message_lite.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/reflection_ops.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/repeated_field.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/service.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/text_format.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/unknown_field_set.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/wire_format.o
flowWorkspace/src/pb_build/src/google/protobuf/.libs/wire_format_lite.o
flowWorkspace/src/pb_build/src/google/protobuf/descriptor.lo
flowWorkspace/src/pb_build/src/google/protobuf/descriptor.pb.lo
flowWorkspace/src/pb_build/src/google/protobuf/descriptor_database.lo
flowWorkspace/src/pb_build/src/google/protobuf/dynamic_message.lo
flowWorkspace/src/pb_build/src/google/protobuf/extension_set.lo
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flowWorkspace/src/pb_build/src/google/protobuf/generated_message_util.lo
flowWorkspace/src/pb_build/src/google/protobuf/io
flowWorkspace/src/pb_build/src/google/protobuf/io/.dirstamp
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs/coded_stream.o
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs/gzip_stream.o
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs/printer.o
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs/strtod.o
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs/tokenizer.o
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs/zero_copy_stream.o
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs/zero_copy_stream_impl.o
flowWorkspace/src/pb_build/src/google/protobuf/io/.libs/zero_copy_stream_impl_lite.o
flowWorkspace/src/pb_build/src/google/protobuf/io/coded_stream.lo
flowWorkspace/src/pb_build/src/google/protobuf/io/gzip_stream.lo
flowWorkspace/src/pb_build/src/google/protobuf/io/printer.lo
flowWorkspace/src/pb_build/src/google/protobuf/io/strtod.lo
flowWorkspace/src/pb_build/src/google/protobuf/io/tokenizer.lo
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flowWorkspace/src/pb_build/src/google/protobuf/reflection_ops.lo
flowWorkspace/src/pb_build/src/google/protobuf/repeated_field.lo
flowWorkspace/src/pb_build/src/google/protobuf/service.lo
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flowWorkspace/src/pb_build/src/google/protobuf/stubs/.libs/atomicops_internals_x86_gcc.o
flowWorkspace/src/pb_build/src/google/protobuf/stubs/.libs/atomicops_internals_x86_msvc.o
flowWorkspace/src/pb_build/src/google/protobuf/stubs/.libs/common.o
flowWorkspace/src/pb_build/src/google/protobuf/stubs/.libs/once.o
flowWorkspace/src/pb_build/src/google/protobuf/stubs/.libs/stringprintf.o
flowWorkspace/src/pb_build/src/google/protobuf/stubs/.libs/structurally_valid.o
flowWorkspace/src/pb_build/src/google/protobuf/stubs/.libs/strutil.o
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flowWorkspace/src/pb_build/src/google/protobuf/stubs/common.lo
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flowWorkspace/src/pb_build/src/google/protobuf/stubs/substitute.lo
flowWorkspace/src/pb_build/src/google/protobuf/text_format.lo
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flowWorkspace/src/protobuf-2.6.0/COPYING.txt
flowWorkspace/src/protobuf-2.6.0/INSTALL.txt
flowWorkspace/src/protobuf-2.6.0/Makefile.am
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flowWorkspace/src/protobuf-2.6.0/README.txt
flowWorkspace/src/protobuf-2.6.0/aclocal.m4
flowWorkspace/src/protobuf-2.6.0/autogen.sh
flowWorkspace/src/protobuf-2.6.0/compile
flowWorkspace/src/protobuf-2.6.0/config.guess
flowWorkspace/src/protobuf-2.6.0/config.h.in
flowWorkspace/src/protobuf-2.6.0/config.sub
flowWorkspace/src/protobuf-2.6.0/configure
flowWorkspace/src/protobuf-2.6.0/configure.ac
flowWorkspace/src/protobuf-2.6.0/depcomp
flowWorkspace/src/protobuf-2.6.0/generate_descriptor_proto.sh
flowWorkspace/src/protobuf-2.6.0/install-sh
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flowWorkspace/src/protobuf-2.6.0/m4/ac_system_extensions.m4
flowWorkspace/src/protobuf-2.6.0/m4/acx_check_suncc.m4
flowWorkspace/src/protobuf-2.6.0/m4/acx_pthread.m4
flowWorkspace/src/protobuf-2.6.0/m4/libtool.m4
flowWorkspace/src/protobuf-2.6.0/m4/lt-obsolete.m4
flowWorkspace/src/protobuf-2.6.0/m4/ltoptions.m4
flowWorkspace/src/protobuf-2.6.0/m4/ltsugar.m4
flowWorkspace/src/protobuf-2.6.0/m4/ltversion.m4
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flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/descriptor_database.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/dynamic_message.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/dynamic_message.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/extension_set.cc
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flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/generated_enum_reflection.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/generated_message_reflection.cc
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flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/generated_message_util.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/generated_message_util.h
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flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/coded_stream.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/coded_stream_inl.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/gzip_stream.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/gzip_stream.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/package_info.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/printer.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/printer.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/strtod.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/strtod.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/tokenizer.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/tokenizer.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/zero_copy_stream.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/zero_copy_stream.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/zero_copy_stream_impl.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/io/zero_copy_stream_impl.h
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flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/message.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/message.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/message_lite.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/message_lite.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/package_info.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/reflection_ops.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/reflection_ops.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/repeated_field.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/repeated_field.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/service.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/service.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_arm64_gcc.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_arm_gcc.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_arm_qnx.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_atomicword_compat.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_generic_gcc.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_macosx.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_mips_gcc.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_pnacl.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_tsan.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_x86_gcc.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_x86_gcc.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_x86_msvc.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/atomicops_internals_x86_msvc.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/common.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/common.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/hash.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/map_util.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/once.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/once.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/platform_macros.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/shared_ptr.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/stl_util.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/stringprintf.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/stringprintf.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/structurally_valid.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/strutil.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/strutil.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/substitute.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/substitute.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/template_util.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/stubs/type_traits.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/testing
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/testing/file.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/testing/file.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/testing/googletest.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/testing/googletest.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/testing/zcgunzip.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/testing/zcgzip.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/text_format.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/text_format.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/unknown_field_set.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/unknown_field_set.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/wire_format.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/wire_format.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/wire_format_lite.cc
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/wire_format_lite.h
flowWorkspace/src/protobuf-2.6.0/src/google/protobuf/wire_format_lite_inl.h
flowWorkspace/src/protobuf-2.6.0/src/solaris
flowWorkspace/src/protobuf-2.6.0/src/solaris/libstdc++.la
flowWorkspace/src/serialization
flowWorkspace/src/spline.cpp
flowWorkspace/src/transformation.cpp
flowWorkspace/src/unitTest
flowWorkspace/src/winFlowJoWorkspace.cpp
flowWorkspace/src/workspace.cpp
flowWorkspace/src/wsNode.cpp
flowWorkspace/tests
flowWorkspace/tests/testthat
flowWorkspace/tests/testthat.R
flowWorkspace/tests/testthat/GatingHierarchy-testSuite.R
flowWorkspace/tests/testthat/GatingSet-testSuite.R
flowWorkspace/tests/testthat/GatingSetList-testSuite.R
flowWorkspace/tests/testthat/InternalTestSuite.R
flowWorkspace/tests/testthat/expect_result
flowWorkspace/tests/testthat/expect_result/cv_gh.rds
flowWorkspace/tests/testthat/expect_result/cv_gs.csv
flowWorkspace/tests/testthat/expect_result/flowJoWorkspace_expect.rds
flowWorkspace/tests/testthat/expect_result/getAllDescendants_cd3_gh.rds
flowWorkspace/tests/testthat/expect_result/getAllDescendants_cd4_gh.rds
flowWorkspace/tests/testthat/expect_result/getAllDescendants_cd8_gh.rds
flowWorkspace/tests/testthat/expect_result/getAxisLabels_gh.rds
flowWorkspace/tests/testthat/expect_result/getCompensationMatrices_gh.rds
flowWorkspace/tests/testthat/expect_result/getData_COMPASS_gs.rds
flowWorkspace/tests/testthat/expect_result/getGate_gs.rds
flowWorkspace/tests/testthat/expect_result/getGate_gs_ellipse.rds
flowWorkspace/tests/testthat/expect_result/getGate_gs_polygon.rds
flowWorkspace/tests/testthat/expect_result/getGraph_gh.rds
flowWorkspace/tests/testthat/expect_result/getIndiceMat_gh.rds
flowWorkspace/tests/testthat/expect_result/getIndice_singlet_gh.rds
flowWorkspace/tests/testthat/expect_result/getIndices_gs.rds
flowWorkspace/tests/testthat/expect_result/getNodes_gh.rds
flowWorkspace/tests/testthat/expect_result/getPopStats_gh.csv
flowWorkspace/tests/testthat/expect_result/getPopStats_gs.csv
flowWorkspace/tests/testthat/expect_result/getTransformations_gh.rds
flowWorkspace/tests/testthat/expect_result/kw_gh.rds
flowWorkspace/tests/testthat/expect_result/kw_gs.rds
flowWorkspace/tests/testthat/expect_result/layoutGraph_gh.rds
flowWorkspace/tests/testthat/flowJoWorkspace-testSuite.R
flowWorkspace/tests/testthat/helper-expectResult.R
flowWorkspace/tests/testthat/test-archive.R
flowWorkspace/tests/testthat/test-compensate.R
flowWorkspace/tests/testthat/test-filterObject.R
flowWorkspace/tests/testthat/test-misc.R
flowWorkspace/tests/testthat/test-parseWorkspace.R
flowWorkspace/vignettes
flowWorkspace/vignettes/HowToMergeGatingSet.Rmd
flowWorkspace/vignettes/flowWorkspace-Introduction.Rmd
flowWorkspace/vignettes/plotGate.Rmd