plot_group_densityR Documentation

Plot density

Description

Plot the density of a some grouping

Usage

plot_group_density(obj, use_filtered = TRUE, units = "est_counts",
  trans = "log", grouping = setdiff(colnames(obj$sample_to_covariates),
  "sample"), offset = 1)

Arguments

obj

a sleuth object

use_filtered

if TRUE, use filtered data. otherwise use all data

units

either 'est_counts' ('scaled_reads_per_base' for gene_mode) or 'tpm'

trans

a string pointing to a function to use for the transformation.

grouping

a string from the columns of sample_to_covariates in the sleuth object for which to group and color by.

offset

the offset so that transformations such as log don't compute -Inf. If NULL, then will not add an offset

Value

a ggplot2 object