cshl_fastx_artifacts_filter

cshl_fastx_artifacts_filter filters sequencing reads that contain sequences with all but three identical bases to remove common high-throughput sequencing artifacts and improve the quality of downstream analyses.

Key Features:

• Artifact Identification: Identifies and filters reads in which all but three bases are identical to remove likely sequencing artifacts.
• Integration with Galaxy Platform: Operates within the Galaxy platform to be executed as part of reproducible computational workflows.

Scientific Applications:

• Quality Control in Sequencing Projects: Removes specific artifact-containing reads to improve data quality for downstream genomic analyses.
• Metagenomic and Phylogenetic Analyses: Supports metagenomic and phylogenetic studies by filtering artifact reads prior to analysis and can be used alongside services such as MetaGenSense and NGphylogeny.fr.

Methodology:

Operates within the Galaxy framework using the Galaxy execution engine, communicates with Galaxy via the Galaxy API or the Bioblend library, and runs on the Institut Pasteur cluster.