R/trelliPlots_seqData.R
trelli_rnaseq_nonzero_bar.RdSpecify a plot design and cognostics for the Non-Zero barchart trelliscope. Non-Zeroes are displayed per panel_by variable. Main_effects data is used to split samples when applicable. For MS/NMR data, use "trelli missingness bar".
trelli_rnaseq_nonzero_bar(
trelliData,
cognostics = c("total count", "non-zero count", "non-zero proportion"),
proportion = TRUE,
ggplot_params = NULL,
interactive = FALSE,
path = .getDownloadsFolder(),
name = "Trelliscope",
test_mode = FALSE,
test_example = 1,
single_plot = FALSE,
...
)A trelliscope data object made by as.trelliData.edata or as.trelliData. Must be built using seqData. Required.
A vector of cognostic options for each plot. Defaults are "total count", "non-zero count", and "non-zero proportion". If grouping data is included, all cognostics will be reported per group. If the trelliData is paneled by a biomolecule, the counts and proportion we be samples. If paneled by a sample or biomolecule class, the counts and proportions will be biomolecules.
A logical to determine whether plots should display counts or proportions. Default is TRUE.
An optional vector of strings of ggplot parameters to the backend ggplot function. For example, c("ylab(”)", "xlab(”)"). Default is NULL.
A logical argument indicating whether the plots should be interactive or not. Interactive plots are ggplots piped to ggplotly (for now). Default is FALSE.
The base directory of the trelliscope application. Default is Downloads.
The name of the display. Default is Trelliscope.
A logical to return a smaller trelliscope to confirm plot and design. Default is FALSE.
A vector of plot indices to return for test_mode. Default is 1.
A TRUE/FALSE to indicate whether 1 plot (not a trelliscope) should be returned. Default is FALSE.
Additional arguments to be passed on to the trelli builder
No return value, builds a trelliscope display of bar charts that is stored in `path`