hippo_umap_plot {HIPPO}R Documentation

visualize each round of hippo through UMAP

Description

visualize each round of hippo through UMAP

Usage

hippo_umap_plot(sce, k = NA, pointsize = 0.5, pointalpha = 0.5, plottitle = "")

Arguments

sce

SingleCellExperiment object with hippo and UMAP result in it

k

number of rounds of clustering that you'd like to see result. Default is 1 to K

pointsize

size of the point for the plot (default 0.5)

pointalpha

transparency level of points for the plot (default 0.5)

plottitle

title of the resulting plot

Value

ggplot object for umap in each round

Examples

data(toydata)
set.seed(20200321)
toydata = hippo(toydata,K = 10,z_threshold = 1,outlier_proportion = 0.01)
toydata = hippo_dimension_reduction(toydata, method="umap")
hippo_umap_plot(toydata)

[Package HIPPO version 1.5.0 Index]