global-FeatureSetCommands: Global feature set commands
In iSEEu: iSEE Universe

Description Usage Arguments Details Value Author(s) See Also Examples

Get or set the commands to define the global collection of feature sets.

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getFeatureSetCommands()

setFeatureSetCommands(value)

value

A list of two character vectors named "CreateCollections" and "RetrieveSet". Both vectors should be of the same length and have the same names. Vectors should contain R commands to create collections and retrieve sets; see ?FeatureSetTable and the output of createGeneSetCommands for details.

These utilities allow users to easily set the feature set commands for all FeatureSetTables at once. Any global settings only take effect (i) during setup of the iSEE application and (ii) if the first FeatureSetTable does not have an existing values in the "CreateCollections" or "RetrieveSet" slots.

getFeatureSetCommands returns the current global feature set commands.

setFeatureSetCommands will set the current global feature set commands and return NULL invisibly.

Aaron Lun

createGeneSetCommands, for one method of generating value.

old <- getFeatureSetCommands()

new.cmds <- createGeneSetCommands(organism="org.Mm.eg.db", 
    identifier="SYMBOL")
setFeatureSetCommands(new.cmds)

getFeatureSetCommands()

setFeatureSetCommands(old)