write_initial_assignments: Create and write the initial assignments table including...

In ClassifyITS: Fungal Assignment Pipeline

Create and write the initial assignments table including drops at all steps

Description

Create and write the initial assignments table including drops at all steps

Usage

write_initial_assignments(
  easy_df,
  consensus_df,
  rep_seqs,
  blast,
  blast_filtered,
  file = NULL,
  verbose = FALSE
)

Arguments

easy_df	Data frame of easy-assigned OTUs
consensus_df	Data frame of consensus-assigned OTUs (hard ones)
rep_seqs	DNAStringSet or named character vector of rep seqs
blast	Data frame of all BLAST results
blast_filtered	Data frame of filtered BLAST results
file	Path for output CSV. If NULL (default), no file is written.
verbose	Logical; if TRUE emit a message when a file is written. Default FALSE.

Value

Data frame of assignments (written if file is not NULL)

ClassifyITS documentation built on April 9, 2026, 5:08 p.m.