get_sub_files: Gather the files for one sample run

In jkruppa/virDisco: Modules for a viral detection pipeline

Description

The function gets the file names and locations of a single sample

Usage

get_sub_files(sample, batch = NULL, in_dir = NULL, out_dir = NULL,
  name = NULL, gz = FALSE)

Arguments

sample	Name of the sample, which is also part of the file name
batch	Name of the batch [default = NULL]
in_dir	Name of the directory, where the fastq files are stored
out_dir	Name of the directory, where the files should be written
name	Name of the sample [expired]
gz	Are the fastq files packed or not? [default = FALSE]

Details

The package virDisco needs a very specific file declaration. Therefore these functions produces the structure.

Value

file.list

Author(s)

Jochen Kruppa

jkruppa/virDisco documentation built on May 3, 2019, 7:05 p.m.