xdev_assign_sequence_abundance

Assign sequence abundance and optionally assign sample and treatment data to a strollur object

Usage

xdev_assign_sequence_abundance(
  data,
  table,
  sequence_name = "sequence_names",
  abundance = "abundances",
  sample = "samples",
  treatment = "treatments",
  verbose = TRUE
)

Arguments

data,

a strollur object

table,

a data.frame containing sequence abundance assignments

sequence_name,

a string containing the name of the column in 'table' that contains the sequence names. Default column name is 'sequence_names'.

abundance,

a string containing the name of the column in 'table' that contains the sequence abundances. Default column name is 'abundances'.

sample,

a string containing the name of the column in 'table' that contains the sequence samples. Default column name is 'samples'. (Optional)

treatment,

a string containing the name of the column in 'table' that contains the sequence treatments. Default column name is 'treatments'.

verbose,

a boolean whether or not you want progress messages. Default = TRUE.

Value

double containing the number of sequences assigned

Examples

data <- new_dataset("my_dataset")
sequence_abundance <- readRDS(strollur_example("miseq_abundance_by_sample.rds"))

xdev_assign_sequence_abundance(data = data, table = sequence_abundance)
#> Assigned 2425 sequence abundances.
#> [1] 2425