This function will get a supervised trajectory from an
addTrajectory), get data
from a desired matrix, and smooth each value across the input trajectory.
getTrajectory( ArchRProj = NULL, name = "Trajectory", useMatrix = "GeneScoreMatrix", groupEvery = 1, log2Norm = TRUE, scaleTo = 10000, smoothWindow = 11, threads = getArchRThreads() )
A string indicating the name of the fitted trajectory in
The name of the data matrix from the
The number of sequential percentiles to group together when generating a trajectory. This is similar to smoothing
via a non-overlapping sliding window across pseudo-time. If
A boolean value that indicates whether the summarized trajectory matrix should be log2 transformed. If you are using a "MotifMatrix" set to FALSE.
Once the sequential trajectory matrix is created, each column in that matrix will be normalized to a column sum
An integer value indicating the smoothing window in size (relaive to
The number of threads to be used for parallel computing.