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| flowWorkspace-package | Import and replicate flowJo workspaces and gating schemes using flowCore. |
| closeWorkspace | Close a flowJoWorkspace |
| closeWorkspace-method | Close a flowJoWorkspace |
| closeWorkspace-methods | Close a flowJoWorkspace |
| ellipsoidGate2FlowJoVertices | Get the vertices of an ellipsoid gate needed to export it to flowJo |
| ellipsoidGate2FlowJoVertices-method | Get the vertices of an ellipsoid gate needed to export it to flowJo |
| ellipsoidGate2FlowJoVertices-methods | Get the vertices of an ellipsoid gate needed to export it to flowJo |
| execute | Apply the GatingHierarchy to data, computing population statistics along the way. |
| execute-method | Apply the GatingHierarchy to data, computing population statistics along the way. |
| execute-methods | Apply the GatingHierarchy to data, computing population statistics along the way. |
| exportAsFlowJoXML | Export a workFlow to FlowJo XML |
| exportAsFlowJoXML-method | Export a workFlow to FlowJo XML |
| exportAsFlowJoXML-methods | Export a workFlow to FlowJo XML |
| flowJoWorkspace-class | Class '"flowJoWorkspace"' |
| flowWorkspace | Import and replicate flowJo workspaces and gating schemes using flowCore. |
| flowWorkspace2flowCore | Convert the GatingHierarchies in a GatingSet to a flowCore workflow. |
| flowWorkspace2flowCore-method | Convert the GatingHierarchies in a GatingSet to a flowCore workflow. |
| flowWorkspace2flowCore-methods | Convert the GatingHierarchies in a GatingSet to a flowCore workflow. |
| GatingHierarchy-class | Class '"GatingHierarchy"' |
| GatingSet-class | Class '"GatingSet"' |
| getBoundaries | Get the boundaries of a flowJo gate |
| getBoundaries-method | Get the boundaries of a flowJo gate |
| getBoundaries-methods | Get the boundaries of a flowJo gate |
| getChildren | Returns a list of child populations of the current node in the 'GatingHierarchy' |
| getChildren-method | Returns a list of child populations of the current node in the 'GatingHierarchy' |
| getChildren-methods | Returns a list of child populations of the current node in the 'GatingHierarchy' |
| getCompensationMatrices | Retrieve the compensation matrices from a flowJo Workspace |
| getCompensationMatrices-method | Retrieve the compensation matrices from a flowJo Workspace |
| getCompensationMatrices-methods | Retrieve the compensation matrices from a flowJo Workspace |
| getData | Return the flowFrame associated with a GatingHierarchy |
| getData-method | Return the flowFrame associated with a GatingHierarchy |
| getData-methods | Return the flowFrame associated with a GatingHierarchy |
| getDimensions | Return the dimensions on which a gate is applied within a GatingHierarchy |
| getDimensions-method | Return the dimensions on which a gate is applied within a GatingHierarchy |
| getDimensions-methods | Return the dimensions on which a gate is applied within a GatingHierarchy |
| getFJWSubsetIndices | Fetch the indices for a subset of samples in a flowJo workspace, based on a keyword value pair |
| getGate | Return the flowCore gate definition associated with a node in a GatingHierarchy. |
| getGate-method | Return the flowCore gate definition associated with a node in a GatingHierarchy. |
| getIndices | Get the membership indices for each event with respect to a particular gate in a GatingHierarchy |
| getIndices-method | Get the membership indices for each event with respect to a particular gate in a GatingHierarchy |
| getIndices-methods | Get the membership indices for each event with respect to a particular gate in a GatingHierarchy |
| getKeywords | Get List of Keywords for a Flow Sample |
| getKeywords-method | Get List of Keywords for a Flow Sample |
| getKeywords-methods | Get List of Keywords for a Flow Sample |
| getNodes | Get the names of all nodes in a gating hierarchy |
| getNodes-method | Get the names of all nodes in a gating hierarchy |
| getNodes-methods | Get the names of all nodes in a gating hierarchy |
| getParent | Return the name of the parent population of the current population in the GatingHierarchy |
| getParent-method | Return the name of the parent population of the current population in the GatingHierarchy |
| getParent-methods | Return the name of the parent population of the current population in the GatingHierarchy |
| getPopStats | Return a table of population statistics for all populations in a GatingHierarchy |
| getPopStats-method | Return a table of population statistics for all populations in a GatingHierarchy |
| getPopStats-methods | Return a table of population statistics for all populations in a GatingHierarchy |
| getProp | Get the population proportions of a node (population) in a GatingHierarchy |
| getProp-method | Get the population proportions of a node (population) in a GatingHierarchy |
| getProp-methods | Get the population proportions of a node (population) in a GatingHierarchy |
| getSample | Get the sample name associated with a GatingHierarchy |
| getSample-method | Get the sample name associated with a GatingHierarchy |
| getSampleGroups | Get a table of sample groups from a flowJo workspace |
| getSampleGroups-method | Get a table of sample groups from a flowJo workspace |
| getSampleGroups-methods | Get a table of sample groups from a flowJo workspace |
| getSamples | Get a list of samples in a flowJo workspace or a GatingSet |
| getSamples-method | Get a list of samples in a flowJo workspace or a GatingSet |
| getSamples-methods | Get a list of samples in a flowJo workspace or a GatingSet |
| getTotal | Fetch the total number of events in a gate defined in a GatingHierarchy |
| getTotal-method | Fetch the total number of events in a gate defined in a GatingHierarchy |
| getTotal-methods | Fetch the total number of events in a gate defined in a GatingHierarchy |
| getTransformations | Return a list of transformations in a flowJo workspace |
| getTransformations-method | Return a list of transformations in a flowJo workspace |
| getTransformations-methods | Return a list of transformations in a flowJo workspace |
| keyword | Methods to retrieve keywords associated with an FCS sample |
| keyword,GatingHierarchy,character | Methods to retrieve keywords associated with an FCS sample |
| keyword,GatingSet,character | Methods to retrieve keywords associated with an FCS sample |
| keyword-method | Methods to retrieve keywords associated with an FCS sample |
| lapply-method | Methods for iterating over a gating set |
| lapply-methods | Methods for iterating over a gating set |
| length-method | Methods to get the length of a GatingSet |
| length-methods | Methods to get the length of a GatingSet |
| openWorkspace | Open a flowJo workspace |
| openWorkspace-method | Open a flowJo workspace |
| openWorkspace-methods | Open a flowJo workspace |
| parseWorkspace | Parse a flowJo Workspace |
| parseWorkspace-method | Parse a flowJo Workspace |
| parseWorkspace-methods | Parse a flowJo Workspace |
| plot | Plot a GatingHierarchy |
| plot-method | Plot a GatingHierarchy |
| plot-methods | Plot a GatingHierarchy |
| plotGate | Plot a flowJo Gate and Cell Population |
| plotGate-method | Plot a flowJo Gate and Cell Population |
| plotGate-methods | Plot a flowJo Gate and Cell Population |
| plotPopCV | Plot the coefficient of variation between flowJo and flowCore population statistics for each population in a gating hierarchy. |
| plotPopCV-method | Plot the coefficient of variation between flowJo and flowCore population statistics for each population in a gating hierarchy. |
| plotPopCV-methods | Plot the coefficient of variation between flowJo and flowCore population statistics for each population in a gating hierarchy. |
| plotWf | plot a workflow |
| show-method | Summarize a flowJoWorkspace object |
| show-methods | Summarize a flowJoWorkspace object |
| summary-method | Summarize a flowJoWorkspace object |
| summary-methods | Summarize a flowJoWorkspace object |
| [-method | Class '"GatingSet"' |
| [<--method | Replace parts of a GatingSet |
| [[-method | Class '"GatingSet"' |
| [[<--method | Replace parts of a GatingSet |