Table R-View

Enables the usage of R views using the local R installation. The View displays the R View generated by the R command entered within the dialog. All columns are written into a CSV file which is then imported into R (saved in the variable named R) and the entered commands are executed. The resulting png file is passed into KNIME and is displayed in the node's view.
Be aware that if you use R commands like png() or bmp() etc., you will open a new graphic device to draw the plot to. This means that the graphic device used by this node to display the plot is not used anymore and the view will show a empty image. It is heavily recommended not to used such R commands.

More details about R:
http://www.r-project.org/
Short-refcard.pdf

Options

R Command

R Snippet

Examples of R code for the creation of plots can be generated by selecting a certain item (plot) of the drop down box. Furthermore, the R code within the command editor can be modified to create user specific views.

Column List

The list contains the column that are available in the input table. Double click any of the column names to insert the respective field in the expression editor. It will replace your current selection or simply insert at the current caret position.

Flow Variable List

The list contains the flow variables that are currently available at the node input. Double clicking any of the entries will insert the respective identifier at the current cursor position (replacing the selection, if any).

View type

Choose a R view from the list of predefined view command and adapt the parameter list in the R command panel. Generic X-Y Plotting, Box Plots, Bar Plots, Cleveland Dot Plots, Association Plots, Conditional Density Plots, Display Contours, Conditioning Plots, Draw Function Plots, Fourfold Plots, Histograms, Plot Columns of Matrices, Mosaic Plots, Scatterplot Matrices, Perspective Plots, Pie Charts, Polygon Drawing, Spine Plots and Spinograms, Star (Spider/Radar) Plots and Segment Diagrams, Sunflower Scatter Plot, 1-D Scatter Plots.

R Binary

R binary path

Path to the local R executable. Note that it is possible to specify the path to the local R executable also in the R section of the KNIME preferences.

Arguments for R binary

Add additional arguments run together with the R binary. The '--vanilla' mode ensures a clean workspace and may cause problems when removed.

Override default

If checked, the specified file is used as R binary. If not checked, the file specified in the KNIME's R preferences is used.

PNG Settings

Image height

The height of the image to create and display in pixels

Image width

The width of the image to create and display in pixels

Resolution (dpi)

The nominal resolution in dpi which will be recorded in the bitmap file, if a positive integer. Also used for units other than the default. If not specified, taken as 72 dpi to set the size of text and line widths.

Point size

The point size of plotted text. One point is approximately one pixel.

Background color

The background color encoded in RGB Hex.

Views

R View

View displays the png generated by the R command entered within the dialog.

R Std Output

The text sent to standard out during the execution of R executable as well as the text of the .Rout file generated by R.

R Error Output

The text sent to standard error during the execution of R executable as well as the text of the .Rout file generated by R. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)

Workflows

• GASiCSeqAn
• Rabema_Example_WorkflowSeqAn

Further Links

• No further links available

Developers