plotNhoodGraphDA: Plot Milo results on graph of neighbourhood

View source: R/plotNhoods.R

plotNhoodGraphDAR Documentation

Plot Milo results on graph of neighbourhood

Description

Visualize log-FC estimated with differential nhood abundance testing on embedding of original single-cell dataset.

Visualize grouping of neighbourhoods obtained with groupNhoods

Usage

plotNhoodGraphDA(x, milo_res, alpha = 0.05, res_column = "logFC", ...)

plotNhoodGroups(x, milo_res, show_groups = NULL, ...)

Arguments

x

A Milo object

milo_res

a data.frame of milo results containing the nhoodGroup column

alpha

significance level for Spatial FDR (default: 0.05)

res_column

which column of milo_res object to use for color (default: logFC)

...

arguments to pass to plotNhoodGraph

show_groups

a character vector indicating which groups to plot all other neighbourhoods will be gray

Value

a ggplot object

a ggplot object

Author(s)

Emma Dann

Emma Dann

Examples

NULL

NULL


MikeDMorgan/miloR documentation built on Aug. 7, 2022, 8:21 a.m.