add_sample_annotations: Adds sample annotation to bagel object with available samples
In campbio/BAGEL: Novel Mutational Signature Analysis

Description Usage Arguments Value Examples

Adds sample annotation to bagel object with available samples

add_sample_annotations(
  bay,
  annotations,
  sample_column = "Sample_ID",
  columns_to_add = colnames(annotations)
)

`bay`	Bagel object we input sample into
`annotations`	table of sample-level annotations to add
`sample_column`	name of sample name column
`columns_to_add`	which annotation columns to add, defaults to all

Sets sample_annotations slot no return

bay <- readRDS(system.file("testdata", "bagel_sbs96.rds", package = "BAGEL"))
init_sample_annotations(bay)
sample_annotations <- read.table(system.file("testdata",
"sample_annotations.txt", package = "BAGEL"), sep = "\t", header=TRUE)
add_sample_annotations(bay = bay, annotations = sample_annotations,
sample_column = "Sample_Names", columns_to_add = "Tumor_Subtypes")
bay