CircosGene {interacCircos} | R Documentation |
Create a number of genes with different functional region
CircosGene( modulename, compareGroup = 1, outerRadius = 180, innerRadius = 150, pathColor = "black", pathWidth = 1, arrow = TRUE, arrowGap = 2, arrowColor = "blue", arrowSize = 5, cdsColor = "#1e77b3", cdsStrokeColor = "black", cdsStrokeWidth = 1, utrWidth = -5, utrColor = "blue", utrStrokeColor = "blue", utrStrokeWidth = 1, animationDisplay = FALSE, animationTime = 2000, animationDelay = 20, animationType = "bounce", data, ... )
modulename |
The name of the new module |
compareGroup |
The group number of this module in compare module |
outerRadius, innerRadius |
Where the module should begin and end |
pathColor |
The color for path between gene elements |
pathWidth |
The width for path between gene elements |
arrow |
Whether display arrows on path |
arrowGap, arrowColor, arrowSize |
The gap, color and size for arrow |
cdsColor, cdsStrokeColor, cdsStrokeWidth |
The color, stroke color and stroke width for coding |
utrWidth, utrColor, utrStrokeColor, utrStrokeWidth |
The max size for bubble |
animationDisplay |
Whether display animation |
animationTime, animationDelay, animationType |
The time, delay and display type for animation |
data |
A list of gene with details including chr, strand, start, end, type, name, link and html. Details can be found on document |
... |
Ignored |
The module tracks for gene modules
geneData<-geneExample Circos(CircosGene('Gene01', outerRadius = 195, innerRadius = 180, data=geneData,arrowGap = 10, arrowColor = "black",arrowSize = "12px",cdsColor = "#1e77b3",cdsStrokeColor = "#1e77b3", cdsStrokeWidth= 5, utrWidth= -2,utrColor= "#fe7f0e",utrStrokeColor= "#fe7f0e", animationDisplay = TRUE),genome =list("EGFR"=1000), outerRadius = 220)