DemuxFastqs with multiple FASTQs per Read

August 17, 2019Bioinformatics No Comments

The DemuxFastqs tool in fgbio is a flexible tool for sample demultiplexing. It takes FASTQs as input, one per sub-read (ex. index read, read one, read two, fragment). You tell it which bases are part of the sample barcode, molecular barcode, and template, and which should be ignored (see Read Structures). Some sequencers (ex. MiSeq) … Read More