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Forum: Bioinformatics 02-10-2012, 07:46 AM
Replies: 0
Views: 1,042
Posted By LauraR
BWA and sub-optimal alignments

What is the best way to run BWA with less stringency? I'd like to allow for more sub-optimal alignments.
Forum: Bioinformatics 01-26-2012, 01:54 PM
Replies: 1
Views: 1,264
Posted By LauraR
Mapping to a custom reference

I have whole genome sequencing data (HiSeq, 100 bp paired end, 20X coverage, mouse genome) that I'd like to map to a custom reference of about 14.5 Kb. Tools like BWA are designed for large...
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