CircosChord {interacCircos} | R Documentation |
Create a chord module using a data matrix
CircosChord( modulename, innerRadius = 237, outerRadius = 238, fillOpacity = 0.67, fillStrokeWidth = 1, padding = 0.06, autoFillColor = TRUE, fillColor = c("#B8B8B8"), fillStrokeColor = c("black"), outerARC = TRUE, outerARCAutoColor = TRUE, outerARCColor = c("red"), outerARCStrokeColor = c("black"), outerARCText = TRUE, data, ... )
modulename |
The name of the new module |
innerRadius |
The inner radius for chord circle |
outerRadius |
The outer radius for chord circle |
fillOpacity |
The opacity for filling color |
fillStrokeWidth |
The stroke width for chord |
padding |
The pad of chord |
autoFillColor |
Whether auto assign color for chord |
fillColor |
If not, manually assign color for chord |
fillStrokeColor |
The color for stroke |
outerARC |
Whether display outer arc |
outerARCAutoColor |
If true, whether auto assign color for arc |
outerARCColor |
The manullay assigned color for arc |
outerARCStrokeColor |
The stroke color for arc |
outerARCText |
Whether display text for arc or not |
data |
A matrix-list of chord value with relationship details |
... |
Ignored |
The module tracks for chord modules of NG-Circos
chordData<-chordExample Circos(CircosChord('CHORD', data = chordData,innerRadius= 210,outerRadius= 211,fillOpacity=0.67, strokeColor="black",strokeWidth= "1px",outerARCText=FALSE),genome=list("C.CK" = 189.51,"C.NPK"=188, "GC.CK"=186.11, "GC.NPK"=191.51,"Alphaproteobacteria"=70.16,"Betaproteobacteria"=23.51, "Gammaproteobacteria"=25.51, "Deltaproteobacteria"=23.28,"Acidobacteria"=53.62, "Actinobacteria"=72.33, "Bacteroidetes"=22.41, "Chloroflexi"=15.08,"Firmicutes"=10.72, "Gemmatimonadetes"=26.37, "Planctomycetes"=19.26,"Thaumarchaeota"=6.15, "Verrucomicrobia"=8.3, "Ascomycota"=159.41, "Basidiomycota"=79.73,"Zygomycota"=139.29 ),outerRadius = 217, genomeLabelDisplay = FALSE)