format_db_other2: An second user-specified database that is initially in the...

In demulticoder: Simultaneous Analysis of Multiplexed Metabarcodes

An second user-specified database that is initially in the format specified by 'DADA2' with header containing taxonomic levels (kingdom down to species, separated by semi-colons)

Description

An second user-specified database that is initially in the format specified by 'DADA2' with header containing taxonomic levels (kingdom down to species, separated by semi-colons)

Usage

format_db_other2(
  data_tables,
  data_path,
  output_directory_path,
  temp_directory_path,
  db_other2
)

Arguments

data_tables	The data tables containing the paths to read files, metadata, and metabarcode information with associated primer sequences
data_path	Path to the data directory
output_directory_path	The path to the directory where resulting files are output
temp_directory_path	User-defined temporary directory to output unfiltered, trimmed, and filtered read directories throughout the workflow
db_other2	A second reference database other than SILVA, UNITE, or oomyceteDB (assumes format is like SILVA DB entries)

Value

The database with modified headers

demulticoder documentation built on June 8, 2025, 12:47 p.m.