zero_proportion_plot {HIPPO} | R Documentation |
visualize each round of hippo through zero proportion plot
zero_proportion_plot( sce, switch_to_hgnc = FALSE, ref = NA, k = NA, plottitle = "", top.n = 5, pointsize = 0.5, pointalpha = 0.5, textsize = 3 )
sce |
SingleCellExperiment object with hippo element in it |
switch_to_hgnc |
boolean argument to indicate whether to change the gene names from ENSG IDs to HGNC symbols |
ref |
a data frame with hgnc column and ensg column |
k |
select rounds of clustering that you would like to see result. Default is 1 to K |
plottitle |
Title of your plot output |
top.n |
number of top genes to show the name |
pointsize |
size of the ggplot point |
pointalpha |
transparency level of the ggplot point |
textsize |
text size of the resulting plot |
a ggplot object that shows the zero proportions for each round
data(toydata) set.seed(20200321) toydata = hippo(toydata,K = 10,z_threshold = 1,outlier_proportion = 0.01) data(ensg_hgnc) zero_proportion_plot(toydata, switch_to_hgnc = TRUE, ref = ensg_hgnc)