plot_deconvolute {granulator}R Documentation

Estimated cell types across methods

Description

plot_deconvolute allows to compare methods across cell types, where the different methods show a high level of agreement or potentially generate diverging proportion estimates.

Usage

plot_deconvolute(
  deconvoluted = deconvoluted,
  scale = TRUE,
  labels = TRUE,
  markers = TRUE
)

Arguments

deconvoluted

output object from function deconvolute.

scale

Boolean: indicate whether the coefficients should be transformed to standard scores (default: scale = TRUE).

labels

Boolean: indicate if x axis labels should be included (default: labels = TRUE).

markers

Boolean: indicate if data points markers should be drawn (default: markers = TRUE).

Details

Plots the estimated cell types generated by different deconvolution methods/signature matrices across samples. Scaling is used to directly compare deconvolution outputs across methods.

Value

line plot

Author(s)

Vincent Kuettel, Sabina Pfister

Examples

# load demo PBMCS data
load_ABIS()

# deconvolute
decon <- deconvolute(m = bulkRNAseq_ABIS, 
sigMatrix = sigMatrix_ABIS_S0)

# plot deconvolute
plot_deconvolute(deconvoluted = decon)


[Package granulator version 1.0.0 Index]