openCyto
Hierarchical Gating Pipeline for flow cytometry data

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262
Source code
44
Man pages
70
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openCyto: Hierarchical Gating Pipeline for flow cytometry data
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API for openCyto
Hierarchical Gating Pipeline for flow cytometry data

Global functions
.addGate_fast Source code
.argDeparser Source code
.argParser Source code
.between_interval Source code
.boundary Source code
.center_mode Source code
.checkFormals Source code
.cytokine Source code
.cytokine_cutpoint Man page Source code
.deriv_density Source code
.find_peaks Source code
.find_valleys Source code
.gateToFilterResult Source code
.gate_flowclust_1d Source code
.gate_flowclust_2d Source code
.gate_mindensity Source code
.gate_mindensity2 Source code
.gate_quad_sequential Source code
.gate_quad_tmix Source code
.gate_quantile Source code
.gate_tail Source code
.gate_tautstring Source code
.gatingTemplate Source code
.gating_adaptor Source code
.gating_boolMethod Source code
.gating_gatingTemplate Source code
.gating_gtMethod Source code
.gating_polyFunctions Source code
.gating_refGate Source code
.gen_1dgate Source code
.gen_dummy_ref_gate Source code
.gen_refGate Source code
.getEllipse Source code
.getEllipseGate Source code
.getFullPath Source code
.getNode Source code
.getPluginMethods Source code
.improvedMindensity Source code
.isPolyfunctional Source code
.isRegistered Source code
.onLoad Source code
.plotTree Source code
.polyfunction_nodes Source code
.preprocess_csv Source code
.preprocess_row Source code
.preprocessing Source code
.prior_flowClust1d Source code
.prior_flowclust Source code
.prior_kmeans Source code
.quadGate2rectangleGates Source code
.quantile_flowClust Source code
.rangeGate Source code
.read.FCS.csv Source code
.read.flowSet.csv Source code
.register Source code
.rotation_matrix Source code
.scale_huber Source code
.singletGate Source code
.splitTerms Source code
.split_multi_parents Source code
.standardize_flowFrame Source code
.standardize_flowset Source code
.truncate_flowframe Source code
.truncate_flowset Source code
.unique_check_alias Source code
.unregister Source code
.validateFlowClustArgs Source code
.validity_check_alias Source code
.warpSet Source code
CytoExploreR_.argDeparser Man page Source code
CytoExploreR_.preprocess_csv Man page Source code
CytoExploreR_exports Man page
add_pop Man page Source code
add_pop_init Man page Source code
alias Source code
as.data.table Man page
as.data.table.gatingTemplate Man page Source code
boolMethod-class Man page
collapseData Source code
cytokine Man page Source code
delete.helperGates Man page Source code
dims,gtMethod-method Man page
dummyMethod-class Man page
fast_coerce Source code
fcEllipsoidGate Man page Source code
fcEllipsoidGate-class Man page
fcFilter-class Man page
fcFilterList Man page Source code
fcFilterList-class Man page
fcPolygonGate Man page Source code
fcPolygonGate-class Man page
fcRectangleGate Man page Source code
fcRectangleGate-class Man page
fcTree Man page Source code
fcTree-class Man page
flowClust.1d Man page
flowClust.2d Man page
gate_flowClust_1d Man page Source code
gate_flowClust_2d Man page Source code
gate_flowclust_1d Man page Source code
gate_flowclust_2d Man page Source code
gate_mindensity Man page Source code
gate_mindensity2 Man page Source code
gate_quad_sequential Man page Source code
gate_quad_tmix Man page Source code
gate_quantile Man page Source code
gate_tail Man page Source code
gate_tautstring Man page Source code
gating Man page Source code
gating,gatingTemplate,GatingSet-method Man page
gatingTemplate Man page
gatingTemplate,character-method Man page
gatingTemplate-class Man page
get.helperGates Man page Source code
getChildren Man page
getChildren,gatingTemplate,character-method Man page
getGate,fcTree,character-method Man page
getGate,gatingTemplate,character-method Man page
getNodes Man page
getNodes,fcTree-method Man page
getNodes,gatingTemplate-method Man page
getParent Man page
getParent,gatingTemplate,character-method Man page
getTautStringApprox Source code
gh_generate_template Man page Source code
groupBy,gtMethod-method Man page
gs_add_gating_method Man page Source code
gs_add_gating_method_init Man page Source code
gs_remove_gating_method Man page Source code
gtMethod Man page
gtMethod-class Man page
gtPopulation-class Man page
gtSubsets-class Man page
gt_delete_helpergates Man page Source code
gt_gating Man page Source code
gt_gating,gatingTemplate,GatingSet-method Man page
gt_gating.boolMethod Source code
gt_gating.dummyMethod Source code
gt_gating.gatingTemplate Man page Source code
gt_gating.gtMethod Source code
gt_gating.polyFunctions Source code
gt_gating.refGate Source code
gt_get_children Man page Source code
gt_get_gate Man page Source code
gt_get_helpergates Man page Source code
gt_get_nodes Man page Source code
gt_get_parent Man page Source code
gt_list_methods Man page Source code
gt_toggle_helpergates Man page Source code
isCollapse,gtMethod-method Man page
listgtMethods Man page Source code
mindensity Man page
mindensity2 Man page Source code
names,gtMethod-method Man page
names,gtPopulation-method Man page
ocRectRefGate Man page Source code
ocRectRefGate-class Man page
ocRectangleGate-class Man page
openCyto Man page
openCyto-deprecated Man page
openCyto.options Man page
parameters,gtMethod-method Man page
plot,fcFilterList,ANY-method Man page
plot,fcTree,character-method Man page
plot,gatingTemplate,ANY-method Man page
plot,gatingTemplate,character-method Man page
plot,gatingTemplate,missing-method Man page
plot,gatingTemplate-method Man page
polyFunctions-class Man page
pop_add.ocRectRefGate Man page Source code
pop_add.ocRectangleGate Man page Source code
posteriors,fcFilter,ANY-method Man page
posteriors,fcFilter,character-method Man page
ppMethod Man page
ppMethod,gatingTemplate,character-method Man page
ppMethod-class Man page
preprocessing,ppMethod,GatingSet-method Man page
prior_flowClust Man page Source code
prior_flowclust Man page Source code
priors,fcFilter,ANY-method Man page
priors,fcFilter,character-method Man page
quadGate.seq Man page Source code
quadGate.tmix Man page Source code
quantileGate Man page Source code
refGate-class Man page
registerGatingFunction Man page Source code
registerPlugins Man page Source code
register_plugins Man page Source code
remove_pop Man page Source code
roxygen_parameter Source code
show,boolMethod-method Man page
show,fcFilter-method Man page
show,gatingTemplate-method Man page
show,gtMethod-method Man page
singleDip Source code
tailgate Man page
tautString Man page Source code
tautStringGate Man page Source code
tautstring Man page Source code
templateGen Man page Source code
toggle.helperGates Man page Source code
tsGates Source code
unlockNamespace Source code
openCyto documentation built on Nov. 8, 2020, 5:40 p.m.

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