Files in openCyto

Hierarchical Gating Pipeline for flow cytometry data

NEWS.md

logo_mid.png

.travis.yml

README.md

NAMESPACE

DESCRIPTION

build/vignette.rds

src/tautstring.cpp

src/kMedDP.h

src/dynamic_prog.cpp

src/singleDip.cpp

src/tsGates.cpp

src/getTautStringApprox.cpp

src/rQuantile.cpp

src/RcppExports.cpp

src/within_cluster.h

src/misc.cpp

src/local_density.cpp

src/Makevars

src/medianAbsoluteDeviation.cpp

src/fill_SMAWK.cpp

src/kMedDP.cpp

src/cppApprox.cpp

src/faust.h

src/unlockNamespace.c

src/cppdip.cpp

src/kkuiper.cpp

src/cpPmden.cpp

R/gatingTemplate-methods.R R/coerce.R R/wrapper-functions.R R/preprocessing-method.R R/gtMethod-methods.R R/gating-functions.R R/RcppExports.R R/tautString.R R/csvTemplate-parser.R R/add.R R/mindensity2.R R/as.data.table.R R/toggle.helperGates.R R/remove_pop.R R/bayes-flowClust.R R/gating-methods.R R/zzz.R R/add_pop.R R/AllClasses.R R/fcFilter-methods.R R/CytoExploreR_wrappers.R R/functions.R R/pluginFramework.R R/fcTree-methods.R R/unlockNamespace.R R/gtPopulation-methods.R R/fcFilterList-methods.R man-roxygen/template-depr_fun.R man-roxygen/template-depr_pkg.R vignettes/openCytoVignette.Rmd vignettes/HowToAutoGating.Rmd vignettes/HowToWriteCSVTemplate.Rmd

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man/gate_flowclust_2d.Rd man/fcRectangleGate.Rd man/gate_quad_tmix.Rd man/posteriors-fcFilter-ANY-method.Rd man/gs_add_gating_method.Rd man/getGate-fcTree-character-method.Rd man/gt_get_parent.Rd man/preprocessing-ppMethod-GatingSet-method.Rd man/fcPolygonGate.Rd man/register_plugins.Rd man/names-gtPopulation-method.Rd man/plot-gatingTemplate-missing-method.Rd man/show-gtMethod-method.Rd man/ppMethod-class.Rd man/plot-fcFilterList-ANY-method.Rd man/ocRectRefGate.Rd man/gt_get_children.Rd man/ppMethod-gatingTemplate-character-method.Rd man/openCyto.Rd man/gate_tautstring.Rd man/gate_mindensity2.Rd man/gt_gating.Rd man/fcFilter-class.Rd man/openCyto.options.Rd man/fcTree.Rd man/gate_quantile.Rd man/getNodes-fcTree-method.Rd man/gtPopulation-class.Rd man/fcPolygonGate-class.Rd man/gh_generate_template.Rd man/dims-gtMethod-method.Rd man/gt_toggle_helpergates.Rd man/fcFilterList-class.Rd man/as.data.table.Rd man/gs_remove_gating_method.Rd man/ocRectangleGate-class.Rd man/gt_list_methods.Rd man/fcTree-class.Rd man/dummyMethod-class.Rd man/gate_mindensity.Rd man/add.Rd man/gate_tail.Rd man/gatingTemplate-class.Rd man/openCyto-deprecated.Rd man/boolMethod-class.Rd man/show-gatingTemplate-method.Rd man/fcFilterList.Rd man/gate_flowclust_1d.Rd man/fcEllipsoidGate.Rd man/fcEllipsoidGate-class.Rd man/show-fcFilter-method.Rd man/polyFunctions-class.Rd man/prior_flowclust.Rd man/gtSubsets-class.Rd man/groupBy-gtMethod-method.Rd man/gt_get_nodes.Rd man/parameters-gtMethod-method.Rd man/gt_get_gate.Rd man/gate_quad_sequential.Rd man/refGate-class.Rd man/ocRectRefGate-class.Rd man/gs_add_gating_method_init.Rd man/priors-fcFilter-ANY-method.Rd man/show-boolMethod-method.Rd man/plot-fcTree-character-method.Rd man/names-gtMethod-method.Rd man/gtMethod-class.Rd man/isCollapse-gtMethod-method.Rd man/CytoExploreR_exports.Rd man/fcRectangleGate-class.Rd tests/testthat.R tests/testthat/test-gating-suite.R

tests/testthat/gatingResults.rds

tests/testthat/helper-expectRes.R tests/testthat/test_gating_functions.R tests/testthat/test-polyfunction.R tests/testthat/test-negated-gating.R tests/testthat/test-misc.R tests/testthat/test-refGate-gating.R tests/testthat/test-template-parsing.R tests/testthat/test-add-remove-pop.R tests/testthat/teardown-xyz.R tests/testthat/test-pluginFramework.R

tests/testthat/expectResults.rds

inst/CITATION

inst/doc/openCytoVignette.Rmd

inst/doc/openCytoVignette.html

inst/doc/HowToAutoGating.Rmd inst/doc/openCytoVignette.R

inst/doc/HowToAutoGating.html

inst/doc/HowToWriteCSVTemplate.html

inst/doc/HowToWriteCSVTemplate.R inst/doc/HowToWriteCSVTemplate.Rmd inst/doc/HowToAutoGating.R

inst/extdata/gating_template/ICS.csv

inst/extdata/gating_template/ICS_080.csv

inst/extdata/gating_template/ITN_Newell.csv

inst/extdata/gating_template/tcell.csv

inst/extdata/gating_template/bcell.csv

inst/extdata/gating_template/treg.csv

openCyto documentation built on Nov. 8, 2020, 5:40 p.m.