The chainNet command avoids the haplotypes unless you request it to use haplotypes:
-inclHap - include query sequences name in the form *_hap*. Normally
these are excluded from nets as being haplotype
pseudochromosomes
--Hiram
Zeng, Jia wrote:
> Hi Hiram,
>
> Thank you so much for your help. It worked like a charm.
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