Up: Component summary Function

InteractionPlot

Plots the distribution of the expression of two genes

Version 1.0
Bundle microarray
Categories Plot
Authors Sirkku Karinen (sirkku.karinen@helsinki.fi)
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Source files component.xml function.scala
Usage Example with default values

Inputs

Name Type Mandatory Description
interactions CSV Mandatory List of gene pairs (parameters inter1Col and inter2Col define the column where genes are found)
expression CSV Mandatory Expression matrix.
groups CSV Optional Status of the samples in the data (i.e. case and control)

Outputs

Name Type Description
plot Array<Latex> Plots, one for each interactions

Parameters

Name Type Default Description
geneColumn string "GeneId" Gene column name in expression matrix.
idCol string "" The column of interaction ids. If this is set, ids are used to index the pot array.
inter1Col string "Gene1" The column where the first interacting gene is found.
inter2Col string "Gene2" The column where the second interacting gene is found.
statusColumn string "" The column in groups file where the status information is found.
xHigh float 1 Limits for the plots to get them to common scale.
TODO: scale automatically
xLow float 0
yHigh float 1
yLow float 0

Test network

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