read_prefilt_fastq {demulticoder} | R Documentation |
A function for calling read_fastq, primer_check, and remove_ns functions. This will process and edit the FASTQ and make them ready for the trimming of primers with 'Cutadapt'. Part of a larger 'prepare_reads' function.
Description
A function for calling read_fastq, primer_check, and remove_ns functions. This will process and edit the FASTQ and make them ready for the trimming of primers with 'Cutadapt'. Part of a larger 'prepare_reads' function.
Usage
read_prefilt_fastq(
data_directory_path = data_directory_path,
multithread,
temp_directory_path
)
Arguments
data_directory_path |
The path to the directory containing raw FASTQ (forward and reverse reads), metadata.csv, and primerinfo_params.csv files |
multithread |
(Optional). Default is FALSE.
If TRUE, input files are filtered in parallel via |
temp_directory_path |
User-defined temporary directory to output unfiltered, trimmed, and filtered read directories throughout the workflow |
Value
Returns filtered reads that have no Ns