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lemene / PECAT

PECAT, a phased error correct and assembly tool
BSD 2-Clause "Simplified" License
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Issue assembling plant genome with PECAT #9

Open xychen233 opened 1 year ago

xychen233 commented 1 year ago

Hi, I am assembling a plant genome with PECAT. Since the genome is large and the assembly process takes up too much memory, I directly ran the step of "Assemble" instead of "Correct". However, I found that the genome would still be correct when running "Assemble". I would like to ask whether running only "Assemble" but not "Correct" will have a big impact on the assembly result? Looking forward to your reply!

lemene commented 1 year ago

“Correct" is the previous step of "Assemble". If corr_iterate_number=0 is set, the ”Correct" step will be skipped. However, it is not recommended for long noisy reads. The "Correct" step does not use much memory compared to other steps.