Minnesota Supercomputing Institute
20120216
Wednesday, December 7, 2016
The Paired-end synchronization check package includes two scripts for determining if the reads in paired-end fastq files are in the proper order (synchronized).
To run this software interactively in a Linux environment run the commands:
module load pe-sync
The script pe-sync-directory.pl checks a directory of paired-end fastq files:
pe-sync-directory.pl /path/to/fastq/directory
The script may not be able to correctly identify pairs of paired-end files if the file names have been modified, in which case you should use the pe-sync-2-files.pl script to check pairs of files.
pe-sync-2-files.pl readfile1.fastq readfile2.fastq