visPlot {singleCellTK} | R Documentation |
Given a plotting method with condition and gene list, return the respective visualization plot(s).
visPlot(inSCE, useAssay, method, condition, glist, facetWrap = TRUE, scaleHMap = TRUE, convertFactor = FALSE)
inSCE |
Input SCtkExperiment object. Required |
useAssay |
The assay to use in the visualization plot. Required |
method |
Visualization method. Available options are boxplot, scatterplot, or heatmap. Required |
condition |
colData annotation of the experiment. Required |
glist |
selected genes for visualization. Maximum 25 genes. Required |
facetWrap |
facet wrap according to genes for boxplot, scatterplot and barplot. Default is FALSE. Optional |
scaleHMap |
scale heatmap expression values. Default is TRUE. Optional |
convertFactor |
If the condition is not a factor, convert it to a factor before plotting. The default is FALSE |
A visualization plot
visPlot(mouseBrainSubsetSCE, "logcounts", "boxplot", "level1class", "C1qa") visPlot(mouseBrainSubsetSCE, "counts", "scatterplot", "age", "Cmtm5") visPlot(mouseBrainSubsetSCE, "counts", "heatmap", "level1class", c("Cmtm5", "C1qa"))