Subsample a fastq file copying the n_seq first sequences in a given folder
Source:R/miscellanous.R
subsample_fastq.Rd
Arguments
- fastq_files
The path to one fastq file or a list of fastq files (see examples)
- folder_output
The path to a folder for output files
- nb_seq
(int; default 1000) : Number of sequences kept (every sequence spread across 4 lines)
Examples
# \donttest{
ex_file <- system.file("extdata", "ex_R1_001.fastq.gz",
package = "MiscMetabar",
mustWork = TRUE
)
subsample_fastq(ex_file, paste0(tempdir(), "/output_fastq"))
subsample_fastq(list_fastq_files("extdata"), paste0(tempdir(), "/output_fastq"), n = 10)
unlink(paste0(tempdir(), "/output_fastq"), recursive = TRUE)
# }