FlowJo Workspaces

Methods for converting between FlowJo workspaces and cytoverse GatingSet objects

flowjo_workspace-class

An R representation of a flowJo workspace.

open_flowjo_xml()

Open/Close a flowJo workspace

parseWorkspace() flowjo_to_gatingset()

Parse a flowJo Workspace

gatingset_to_flowjo()

Convert a GatingSet to flowJo workspace

fj_ws_get_sample_groups()

Get a table of sample groups from a flowJo workspace

fj_ws_get_samples()

Get a list of samples from a flowJo workspace

fj_ws_get_keywords()

Get Keywords

Diva Workspaces

Methods for converting between BD FACSDiva workspaces and cytoverse GatingSet objects

diva_workspace-class

An R representation of a BD FACSDiva workspace

open_diva_xml()

open Diva xml workspace

diva_to_gatingset()

Parse a FACSDiva Workspace

diva_get_samples() diva_get_sample_groups()

Get a table of samples from a FACSDiva workspace

Cytobank Experiments

Methods for converting between Cytobank experiments and cytoverse GatingSet objects

open_cytobank_experiment()

Construct a cytobank_experiment object from ACS file

cytobank_to_gatingset(<default>) cytobank_to_gatingset(<cytobank_experiment>)

A wrapper that parses the gatingML and FCS files (or cytobank_experiment object) into GatingSet

gatingset_to_cytobank()

Convert a GatingSet to a Cytobank-compatible gatingML

ce_get_samples()

Obtain a mapping between the samples and marker panels in a Cytobank experiment

ce_get_compensations()

Obtain the spillover matrices for the samples in a Cytobank experiment

ce_get_transformations()

Obtain the transformations associated with each channel in a Cytobank experiment