correlateTrajectories | R Documentation |
This function will correlate 2 trajectory matrices from getTrajectory.
correlateTrajectories(
seTrajectory1 = NULL,
seTrajectory2 = NULL,
corCutOff = 0.5,
varCutOff1 = 0.8,
varCutOff2 = 0.8,
removeFromName1 = c("underscore", "dash"),
removeFromName2 = c("underscore", "dash"),
useRanges = FALSE,
fix1 = "center",
fix2 = "start",
maxDist = 250000,
log2Norm1 = TRUE,
log2Norm2 = TRUE,
force = FALSE,
logFile = createLogFile("correlateTrajectories")
)
seTrajectory1 |
A |
seTrajectory2 |
A |
corCutOff |
A numeric describing the cutoff for determining correlated features. |
varCutOff1 |
The "Variance Quantile Cutoff" to be used for identifying the top variable features across |
varCutOff2 |
The "Variance Quantile Cutoff" to be used for identifying the top variable features across |
removeFromName1 |
A character vector describing how to filter names in matrix 1. Options include "underscore", "dash", "numeric" and "dot". The string portion prior to these will be kept. |
removeFromName2 |
A character vector describing how to filter names in matrix 2. Options include "underscore", "dash", "numeric" and "dot". The string portion prior to these will be kept. |
useRanges |
A boolean describing whether to use range overlap matching for correlation analysis. |
fix1 |
A character describing where to resize the coordinates of |
fix2 |
A character describing where to resize the coordinates of |
maxDist |
A integer specifying the maximum distance between the coordinates of |
log2Norm1 |
A boolean describing whether to log2 normalize |
log2Norm2 |
A boolean describing whether to log2 normalize |
force |
A boolean value that determines whether analysis should continue if resizing coordinates in |
logFile |
The path to a file to be used for logging ArchR output. |
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