SLIDINGWINDOW: Perform a sliding window trimming.The GenePattern Trimmomatic module conducts quality-based trimming and filtering of FASTQ-formatted short read data produced by Illumina sequencers. The module can also be used to remove adapters and other Illumina technical sequences from the read sequences.
The module operates on both paired end or single end data. With paired end data the tool will maintain correspondence of read pairs and also use the additional information contained in paired reads to better find adapter sequences contaminating the read data.