Read Filtration by Quality

Problem

Poor-quality reads can be filtered out using the FASTQ Quality Filter tool from the FASTX toolkit. A command-line version of FASTX can be downloaded for Linux or MacOS from its website. An online interface for the FASTQ Quality Filter is also available here within the Galaxy web platform.

Given: A quality threshold value q, percentage of bases p, and set of FASTQ entries.

Return: Number of reads in filtered FASTQ entries