quantsf_to_dt: quantsf_to_dt

In Benjamin-Vincent-Lab/PostRNASeqAlign: Functions for writing commands and post processing the Star Salmon pipeline.

quantsf_to_dt

Description

Joins individual sample files into one tsv file.

Usage

quantsf_to_dt(
  input_file_paths,
  counts_or_tpm = "counts",
  readme_path = NULL,
  sample_key = "Run_ID",
  this_script_path = ""
)

Arguments

input_file_paths	Named character vector of paths to the pipeline output data. Samples will be named by the names of the vector. If not named the will be named after the quant file.
counts_or_tpm	'counts' or 'tpm'
readme_path	Optional path to which the comments will be appended.
sample_key	String to name the sample identifier column.
this_script_path	Path to script that runs this function for documentation purposes

Details

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ quantsf_to_dt ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Value

A vector of paths to the output file.

Benjamin-Vincent-Lab/PostRNASeqAlign documentation built on Feb. 14, 2024, 8:31 a.m.