plot_diagram | R Documentation |
This function plots stratigraphic data either as polygons or bars.
plot_diagram( x, bars = FALSE, col = "black", amplif = 5, save = FALSE, filename = "Diagram.pdf", width = 3.54, height = 9, as.png = FALSE, png.res = 300, yax_incr = 5, bar_width = diff(range(x$inputs$x))/50, xlim = NA, tickAtSample = TRUE, col_pos = "black", col_neg = "grey80", title = NA )
x |
A data frame of the data to plot (first column with age or depth)
and the taxa in the following columns. x can also be a
|
bars |
A boolean that indicates if the data should be plotted as polygons
(default: |
col |
Colours to be used for the polygons. If the number of colours does not match the number of taxa, colors will be recycled. |
amplif |
A factor the show exaggeration on the diagram. Only for polygon plot. Default 5. |
save |
A boolean to indicate if the diagram should be saved as a pdf file.
Default is |
filename |
An absolute or relative path that indicates where the diagram
should be saved. Also used to specify the name of the file. Default:
the file is saved in the working directory under the name
|
width |
The width of the output file in inches (default 3.54in ~ 9cm). |
height |
The height of the output file in inches (default 9in ~ 23cm). |
as.png |
A boolean to indicate if the output should be saved as a png.
Default is |
png.res |
The resolution of the png file (default 300 pixels per inch). |
yax_incr |
Graphical parameters describing the increment size on the y-axis (default 5). |
bar_width |
Width of the bars of the barplot (default 1/50th of the x range). |
xlim |
The range covered by the x-axis. Can be adjusted to get round numbers on the x-axis. If smaller than the range covered by the data, the data will be truncated (default: range of the data). |
tickAtSample |
Boolean that indicates whether a tick mark should be added
on the x-axis at the location of each sample (default |
col_pos |
Graphical parameter for the barplot. Colour of all the positive values (default black). |
col_neg |
Graphical parameter for the barplot. Colour of all the negative values (default light grey). |
title |
Name to be added on top of the plot (default |
No return value, this function is used to plot.
data(crest_ex) plot_diagram(crest_ex, bars=TRUE, col='black', bar_width=0.8) plot_diagram(crest_ex, col=1:7, tickAtSample=FALSE) #> Replace 'tempdir()' by the location where the sample should be saved (e.g. 'getwd()') plot_diagram(crest_ex, save=TRUE, filename=file.path(tempdir(), 'testDiagram.pdf'), bars=TRUE, col_pos='cornflowerblue', col_neg='darkgreen', bar_width=0.8, xlim=c(3,15))
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