fqquality

fqquality performs quality control on high-throughput sequencing reads by trimming or masking low-quality terminal bases, lowering quality scores to a minimum threshold, and producing singlet output for paired-end data.

Key Features:

• Trimming and Masking: Trims or masks low-quality bases at the extremities of high-throughput sequencing reads.
• Quality Adjustment: Decreases quality scores to a minimum threshold to ensure consistency across datasets.
• Paired-End Data Handling: When paired-end data is provided, outputs an additional singlet dataset for reads that become unpaired.

Scientific Applications:

• Metagenomics: Produces higher-quality reads for metagenomic studies that depend on accurate base-level information.
• Assembly, Annotation, and Comparative Genomics: Improves input read quality to increase reliability of genome assembly, annotation, and comparative genomics analyses.

Methodology:

Communicates with a Galaxy instance (Galaxy@Pasteur) via the Galaxy API or the Bioblend library and executes tasks on the Institut Pasteur computational cluster.