My FASTQ files are bigger than 1.5 GB what should I do?

The free data analysis runs included with QuantSeq FWD/REV kits are limited to FASTQ files with a maximum size of 1.5 GB. If you have larger files you have two options:

Option 1

You can compress your FASTQ files and/or sub-sample the reads to reduce the size of your FASTQ files to 1.5 GB or less.

To compress the files:

• For windows computers download 7-zip and re-zip with quality best.

• For Mac OS and Linux this can be done with the command line command: gunzip -c some_file.fastq.gz | gzip -9 > some_higher_compressed_file.fastq.gz

To sub-sample reads:

• Check out this Subsampling a fastq file with awk a command line tutorial.

Option 2

You can purchase data analysis codes for larger file sizes by contacting sales@lexogen.com. Here are the catalog numbers you need:

Please note there are different catalog numbers for FWD or REV runs as this controls the access to the specific analysis pipeline.