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Use Phables on a mixed community #60

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bhagavadgitadu22 opened this issue Jan 14, 2025 · 0 comments
Open

Use Phables on a mixed community #60

bhagavadgitadu22 opened this issue Jan 14, 2025 · 0 comments

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@bhagavadgitadu22
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bhagavadgitadu22 commented Jan 14, 2025 •
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I want to use Phables on stream biofilm metagenomes. I have a very intricate gfa graph obtained after MEGAHIT and during my tests Phables was able to solve only 4 case2_linear phages where several nodes are actually merged. I am wondering if I can tune some parameters to improve the performance?

I could also start from a different gfa graph. For instance in Hecatomb a Flye assembly of the contigs from my different samples is proposed: it is more doable than a cross-assembly in terms of resources and would simplify the gfa graph. I am afraid it would introduce chimeric contigs though.
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