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Hi developer!
I have assembled the pe-150 metagenomic reads by metaspades, but now I also want to run metaplasmidspades and biosyntheticspades. I noticed that, in version SPAdes 3.15.2, you have specified a input flag --assembly-graph <file_name>, but you said that "Note that the output would be different as compared to standalone runs of these pipelines as they setup graph simplification options as well". It confused me that what the differences are. which one will you recommend, standalone runs of these pipelines or runs taking assembly graph as input?
thanks so much!
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Hi developer!
I have assembled the pe-150 metagenomic reads by metaspades, but now I also want to run metaplasmidspades and biosyntheticspades. I noticed that, in version SPAdes 3.15.2, you have specified a input flag --assembly-graph <file_name>, but you said that "Note that the output would be different as compared to standalone runs of these pipelines as they setup graph simplification options as well". It confused me that what the differences are. which one will you recommend, standalone runs of these pipelines or runs taking assembly graph as input?
thanks so much!
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