wsaPreProcessing {cellmigRation} | R Documentation |
This function allows filtering of cells and preprocessing of the trajectory data from wound scratch assay (WSA) experiments.
wsaPreProcessing( object, PixelSize = 1.24, TimeInterval = 10, FrameN = NULL, imageH = 1500, woundH = 600, upperE = 400, lowerE = 1000, mar = 75, clearW = TRUE, ExpName = NULL )
object |
|
PixelSize |
A numeric value of the physical size of a pixel. |
TimeInterval |
A numeric value of the time elapsed between successive frames in the time-lapse stack. |
FrameN |
A numeric value of the number of frames. Default is NULL |
imageH |
A numeric value of the image height. |
woundH |
A numeric value of the image height. |
upperE |
A numeric value of the upper edge of the wound. |
lowerE |
A numeric value of the lower edge of the wound. |
mar |
A numeric value of the margin to be used to narrow the clearing zone inside the zone. |
clearW |
A logical vector that allows removing the cells within the wound. Default is TRUE. |
ExpName |
string, name of the experiment. Can be NULL |
An CellMig class object with filtered, annotated and preprocessed data.
Salim Ghannoum salim.ghannoum@medisin.uio.no
https://www.data-pulse.com/dev_site/cellmigration/
WSADataset <- get(data(WSADataset)) wasDF=WSADataset[seq(1,30,by=1),] wsaTD <- CellMig(wasDF) wsaTD <- wsaPreProcessing(wsaTD,FrameN=20)