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philres / ngmlr

NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations
MIT License
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Error correction of PacBio reads #27

Closed Asutu closed 7 years ago

Asutu commented 7 years ago

Planning on trying NGM-LR to identify structural variations by read mapping PacBio reads to a reference genome, is it advisable to error correct PacBio reads before alignment or is just better to feed the raw data and let NGM-LR do its work? Could not see any info about this in the docs nor posters.

Thanks, Pedro

fritzsedlazeck commented 7 years ago

Hi Pedro, we are typically using raw Pacbio reads. Cheers Fritz