label2DMap: This function assigns a label to contour map

In angy89/TinderMIX: TinderMIX: An R package to cluster gene expression by contour plots

Usage

label2DMap(map, BMD, coord, myContour, th = 0.95, mode = "mix",
  nDoseInt = 3, nTimeInt = 3, doseLabels = c("Late", "Middle",
  "Early"), timeLabels = c("Sensitive", "Intermediate", "Resilient"),
  toplot = FALSE)

Arguments

map	matrix containing the z-map for a specific gene or cluster prototype
BMD	matrix containing the dose-response area
coord	matrix with x and y coordinate. The first column contain the doses, while the second one the time points
myContour	matrix with coordinate of bmd area border
th	a threshold to define the portion of dose-response area to be identified as labels for the gene.
mode	is a character specifying when an area is called active. values can be "cumulative" or "presence". If presence, an area is called active if at least one of its pixel is on the BMD curve. If cumulative, the number of region needed to reach the th \item nDoseIntnumber of dose related breaks in the gene label's table. default is 3 \item nTimeIntnumber of time related breaks in the gene label's table. default is 3 \item doseLabelsvector of colnames (doses) for the gene label's table. default is c("Sensitive","Intermediate","Resilient") \item timeLabelsvector of rownames (time points) for the gene label's table. default c("Late","Middle","Early") \item nDoseIntnumber of dose related breaks in the gene label's table. default is 3 \item nTimeIntnumber of time related breaks in the gene label's table. default is 3 \item doseLabelsvector of colnames (doses) for the gene label's table. default is c("Sensitive","Intermediate","Resilient") \item timeLabelsvector of rownames (time points) for the gene label's table. default c("Late","Middle","Early")

a list with 9x9 matrices specifying if the gene is active at low, mid or high time points and dose levels This function assigns a label to contour map

angy89/TinderMIX documentation built on Nov. 26, 2020, 9:26 p.m.