FileFormat fastq

Fastq files are the most common type of raw files from sequencing instruments. Some sequencers, specifically some Nanopore sequencers, use fast5 as a raw format, but these will be converted to fastq before submission to the 4DN data portal. Each read in a fastq file contains a read id or header, the sequence, a line containing '+' and then a per-base quality score. On the 4DN data portal, fastq files are generally unfiltered and unclipped/untrimmed.