Up: Component summary
Up: Component summary
Function
InteractionPlotPlots the distribution of the expression of two genes
| Version | 1.0 |
|---|---|
| Bundle | microarray |
| Categories | Plot |
| Authors | Sirkku Karinen (sirkku.karinen@helsinki.fi) |
| Issue tracker | View/Report issues |
| 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