jtamames / SqueezeMeta

A complete pipeline for metagenomic analysis
GNU General Public License v3.0
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Completeness and Contamination of bins are missing but the other parameters have values #775

Closed zcx970213 closed 5 months ago

zcx970213 commented 5 months ago

Dear sir, In bintable, we found that Completeness and Contamination of bins were missing but the other parameters had values, as shown in the following figure. We are uncertain as to why this error has occurred. Please assist us in resolving it. Thank you very much.

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jtamames commented 5 months ago

Hello All your bins are from Eukaryotes, and checkM is able to scan for completeness/contamination just for prokaryotic bins. Sorry about that. You will need to find another way of checking your bins. Luckily there are some tools available for this. For example, check this one: https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-02155-4

Best, J

zcx970213 commented 5 months ago

Yeah, I see, my bins are from Eukaryotes.... Thank you very much for your response and suggestions. I will try alternative approaches. Best, Shaun