GBSX is a package of tools to first aid in experimental design, including choice of enzymes and barcode design. Secondly, it provides a first analysis step to demultiplex samples using in-line barcodes, providing fastq files that can easily be plugged into existing variant analysis pipelines.
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GBSX: a toolkit for experimental design and demultiplexing genotyping by sequencing experiments.
Herten K, Hestand MS, Vermeesch JR, Van Houdt JK.
BMC Bioinformatics. 2015 Mar 6;16(1):73.