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Old 11-23-2015, 02:30 AM   #6
sudders
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Location: Sheffield, UK

Join Date: Dec 2011
Posts: 32
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I just though people might like to know that we never did get to the bottom of the baised UMI usage, but we did find an even bigger problem - PCR and sequencing errors in UMIs.

We've created some tools for dealing with UMIs - they can process fastq files to move the UMI sequence from the read to the name pre-mapping and then a tool that implements a number of schemes for error aware deduplication post mapping.

See https://github.com/CGATOxford/UMI-tools

Ian
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