The GOChord function generates a circularly composited overview of selected/specific genes and their assigned processes or terms. More generally, it joins genes and processes via ribbons in an intersection-like graph.
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data |
The matrix represents the binary relation (1= is related to, 0= is not related to) between a set of genes (rows) and processes (columns); a column for the logFC of the genes is optional |
title |
The title (on top) of the plot |
space |
The space between the chord segments of the plot |
gene.order |
A character vector defining the order of the displayed gene labels |
gene.size |
The size of the gene labels |
gene.space |
The space between the gene labels and the segement of the logFC |
nlfc |
Defines the number of logFC columns (default=1) |
lfc.col |
The fill color for the logFC specified in the following form: c(color for low values, color for the mid point, color for the high values) |
lfc.min |
Specifies the minimium value of the logFC scale (default = -3) |
lfc.max |
Specifies the maximum value of the logFC scale (default = 3) |
ribbon.col |
The background color of the ribbons |
border.size |
Defines the size of the ribbon borders |
process.label |
The size of the legend entries |
limit |
A vector with two cutoff values (default= c(0,0)). |
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