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PacificBiosciences / FALCON_unzip

Making diploid assembly becomes common practice for genomic study
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missing primary contigs after cns #32

Closed skingan closed 8 years ago

skingan commented 8 years ago

(Trying this again in the right place...)

In a couple of my assemblies, I've observed a few haplotigs with no associated primary contig after the quiver consensus calls: they are absent from cns_p_ctg.fasta. The primary contig is present in all_p_ctg.fa but has L = 0 (its associated haplotig has nonzero length). The contig is present in p_ctg.fa and has nonzero length while its associated contig is shorter.

To follow this example, see '000523F' in /lustre/hpcprod/skingan/kakapo

I wonder if this is related to the observation in one asm that the total length of haplotigs is longer than primary contigs?

Thank you.

pb-jchin commented 8 years ago

see https://github.com/PacificBiosciences/FALCON_unzip/issues/20

skingan commented 8 years ago

right on, thanks!

On Tue, Aug 16, 2016 at 11:51 AM, Jason Chin notifications@github.com wrote:

Closed #32 https://github.com/PacificBiosciences/FALCON_unzip/issues/32.

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