dimsum_stage_cutadapt: dimsum_stage_cutadapt

In lehner-lab/DiMSum: A pipeline for processing deep mutational scanning data

dimsum_stage_cutadapt

Description

Run cutadapt on all fastq files.

Usage

dimsum_stage_cutadapt(
  dimsum_meta,
  cutadapt_outpath,
  report = TRUE,
  report_outpath = NULL,
  save_workspace = TRUE
)

Arguments

dimsum_meta	an experiment metadata object (required)
cutadapt_outpath	cutadapt output path (required)
report	whether or not to generate cutadapt summary plots (default: TRUE)
report_outpath	cutadapt report output path
save_workspace	whether or not to save the current workspace (default: TRUE)

Value

an updated experiment metadata object

lehner-lab/DiMSum documentation built on April 5, 2025, 10:06 p.m.