fungi diploid genome denovo assembly by pacbio reads
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6.1 years ago
orange ▴ 30

Hi,everyone.I have a project about 50M fungi diploid denovo assembly.I had assembly 37M fungi haploid with pacbio reads and illuminate and Miseq reads.For haploid genome, I used Ectool and HGAP3. But for diploid genome,I have doubt about how to correct subreads,and use which assembler .

And I have about 50x subreads.

 

Thanks!

assembly • 2.2k views
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6.1 years ago
orange ▴ 30

My firt thought is use SOAP2 to get diploid contigs,then use these contigs and PE reads to correct subreads ,inally use FALCON.

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PacBio self-error correction (PBcR) is possible at such high coverages. Then you can use Falcon assembler or CANU.

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5.1 years ago
Picasa ▴ 590

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