clonevol (version 0.99.11)

plot.cluster.flow: Plot the mean/median of the clusters of variants across samples

Description

Plot the mean or median of the clusters VAF across samples in a single plot

Usage

plot.cluster.flow(variants, cluster.col.name, vaf.col.names, ...)

Arguments

variants

Variant data frame

cluster.col.name

Name of cluster column (default='cluster')

sample.names

Names of samples, corresponding to vaf.col.names (default=NULL)

vaf.in.percent

VAF is in percent (default=TRUE)

center.measure

Method used to determine the center of VAFs of variants within a cluster (default='median', can also be 'mean')

line.size

Size of lines (default=1)

colors

Colors of the clusters' variant data points

shapes

Shapes of the clusters' variant data points

x.title

Title of x axis (default="Variant Allele Frequency (%)")

y.title

Title of y axis

out.file

Output file (can be pdf, png, etc.) (default=NULL). If equal NULL, this function return the plot that can be print

width

Width of the output file

height

Height of the output file

Examples

# NOT RUN {
data(aml1)
plot.cluster.flow(aml1$variants,
                  vaf.col.names = aml1$params$vaf.col.names,
                  sample.names = c('Primary', 'Relapse'),
                  out.file = paste0(tempfile(), '.pdf'),
                  colors = c('#999793', '#8d4891', '#f8e356',
                     '#fe9536', '#d7352e'))

# }