find_read_files: Find read files in a given directory.

In Gibbons-Lab/mbtools: Provides helper functions for microbiome preprocessing and analysis

Find read files in a given directory.

Description

Find read files in a given directory.

Usage

find_read_files(
  directory,
  pattern = illumina_pattern,
  annotations = illumina_annotations,
  dirs_are_runs = FALSE
)

Arguments

directory	The directory in which to look.
pattern	Regular expression pattern for the file names. Each capture group will be used as an annotation.
annotations	Names for the annotations. Must contain one name for each capture group in 'pattern'.
dirs_are_runs	Whether subdirctories indicate different sequencing runs.

Value

A data table that contains the samples and their annotations.

Gibbons-Lab/mbtools documentation built on Jan. 28, 2024, 11:08 a.m.