data2graph: Function to create .dot files for graph representation of...
In coRNAi: Analysis of co-knock-down RNAi data

Description Usage Arguments Value Author(s) See Also Examples

From a interaction table or list of data matrices a .dot file is created for visualisation of the interaction/correlation network

data2graph(indata, sizethres=0, thres, thresBy = "P.Value", cols = c("blue", "white", "red"), gamma.col = 1, scaleFactor = 1, nodecolor = "white", writedot = FALSE, filename, width=0.1, penwidth=1, shape='circle', fixedsize=TRUE,fontsize=10)

`indata`
`sizethres`	numerical, lower treshold on the absolute effect size for edges
`thres`	threshold that should be used for interactions/correlations to be included in graph
`thresBy`	what data should the the threshold by used at. By default the p value from the moderated t test is used but one could also use e.g. the ordinary t or the size
`cols`	colors to be used in the plot, should be a character vector with the colors for low, neutral and hig values
`gamma.col`	Factor used to scale the colors
`scaleFactor`	Scale factor to adjust the distances beteen nodes in the graph
`nodecolor`	character or character vector, which color(s) should the nodes have. Should either be of lenth 1 (all nodes same color) or same length as the number of nodes.
`writedot`	logical, should a .dot file be created.
`filename`	charcter string with name of .dot file
`width`	width of the nodes
`penwidth`	width of the lines in the plot
`shape`	shape of the nodes in the plot
`fixedsize`	should all nodes have the same size
`fontsize`	size of the font in the plot