Ideally, is it possible to get MIRA to assemble only one haplotype, and not all? Also, when heterozygosity becomes complicated, contig building ends prematurely, is there a way to prevent this by warning the assembler about the rate of heterozygosity?
On 8/18/2014 3:10 PM, Bastien Chevreux wrote:
On 16 Aug 2014, at 18:31 , Adrian Pelin <apelin20@xxxxxxxxx> wrote:I sent an email a few days ago attached below about highly heterozygous assemblies. I was wondering if there is any way to adjust the parameters to warn MIRA of sample variation.Question remains: what do you understand by “warning”? In default mode, MIRA will always assemble contigs according to “what was sequences”, i.e., not merge “SNPs” or similar things in-between haplotypes. B.
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