Description Usage Arguments Value
Print density plots
1 2 3 4 5 6 7 | printInfiltrationDensityPlots(den, bandWidth = NULL, config,
yScaleConsistency = "population", indivPopulations = TRUE,
absoluteDensity = TRUE, densityPercentage = TRUE, byFOV = TRUE,
summarize = TRUE, stacked = TRUE, forceStack = FALSE,
sampleOrder = NULL, separateLegend = TRUE, infiltrationAreas = NULL,
outDir = NULL, sampleSummaryRows = NULL, sampleSummaryCols = NULL,
sampleSummaryPtsPerPage = NULL)
|
den |
tibble containing densities for all markers to be plotted |
bandWidth |
if plotting by distance intervals from infiltration boundary, this is the size of each interval |
config |
tibble containing marker configureation (returned from getMarkerConfig()) |
yScaleConsistency |
level on which y-scales should be the same; choices: ["byPopulation"|"all"|"markerSet"] |
indivPopulations |
logical; print a plot for each individual population; default=TRUE |
absoluteDensity |
logical; print plots of absolute density values; default=TRUE |
densityPercentage |
logical; print plots of density percentage values; default=TRUE |
byFOV |
logical; print plots of each FOV (all FOV on one panel); default=TRUE |
summarize |
logical; print summary plots, showing density of ALL FOV together; default=TRUE |
stacked |
logical; for plots with all exclusive markers, print stacked bar plots; default=TRUE |
forceStack |
force stacking of cell types even if they appear to be unstackable |
sampleOrder |
vector of samples in order that they should appear on plot |
outDir |
directory where all plots will be printed, organized by marker set |
sampleSummaryRows |
number of rows to include on each page of sample summary file; default=NULL |
sampleSummaryCols |
number of cols to include on each page of sample summary file; default=NULL |
sampleSummaryPtsPerPage |
number of patients to include on each page of sample summary file; can be used instead of sampleSummary[Rows|Cols]; default=NULL |
areaDat |
tibble containing area data for all Samples, FOVs and Bands |
nothing
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.