RLEplot_mod: RLEplot_mod

In drejom/helpeRs: Personal Package for Denis O'Meally

RLEplot_mod

Description

plot the relative log expresion for each sample. This plot is useful for comparing normalization procedures between groups.

Usage

RLEplot_mod(
  data_matrix,
  sample_sheet,
  col_by = group,
  title = NULL,
  caption = NULL
)

Arguments

data_matrix	log2 transformed counts, as a data.frame or matrix
sample_sheet	a sample_sheet object that describes the sample metadata
col_by	a column name from sample_sheet to colour the plot by
title	a title for the plot. Leave blank for none, or a character string
caption	caption for the plot. Leave blank for none, or a character string

Value

a ggplot object

Author(s)

Denis O'Meally

Examples

m <- -log2(replicate(10, rgamma(3e4, 0.1))) %>%
    magrittr::set_colnames(letters[1:10])
sample_sheet <- data.frame(
    sample_id = letters[1:10],
    group = c(rep("A", 4), rep("B", 6))
)

RLEplot_mod(
    m,
    sample_sheet,
    col_by = "group",
    title = "Relative log expression",
    caption = "Simulated data set of 10 samples in 5 groups drawn from 30000 genes"
)

drejom/helpeRs documentation built on Aug. 26, 2022, 4:52 a.m.