Obtain dimensional reduction data — getDefaultTrajectory • SPATA2

Sets and extracts the default trajectory id. Useful to save typing in functions that require a trajectory name as input.

getDefaultTrajectory(object, ...)

getDefaultTrajectoryId(object, ...)

setDefaultTrajectory(object, id, verbose = NULL)

setDefaultTrajectoryId(object, id, verbose = NULL)

Arguments

object: A valid spata-object.
id: Character value.
n_pcs: Numeric value. Denotes the number of principal components to be included.

Value

A data.frame that contains the unique identifiers (keys): barcodes, sample and:.

getPcaDf(): PC1, PC2, PC3, ...PCn
getTsneDf(): tsne1, tsne2
getUmapDf(): umap1, umap2

setDefaultTrajectory(): Updated spata object. getDefaultTrajectory(): Character value. Id of the default trajectory.