Increase Prediction Evidence Output

[geboro]

Hello!

Plasmer is a cool tool. But as you specified in the publication yourself, it can be prone to missclasification too. An excellent way to help the user decide on the quality of the prediction is provide information about the evidence used to make the decision. If I understand correctly Plasmer is predicting the oriT, RDS, AMR, etc. genomic features (I see it running prodigal), and uses it for the classifier.

Why are these genomic features not reported? I would like to be able to check these predictions manually to evaluate the validity of the prediction myself.

Particularly when the decision taken is simply binary (chromosome/plasmid), even in cases when the probabilities for chromosome/plasmid are pretty close. For example, I have a system where the probabilities are 0.449(chr):0.554(pla), and Plasmer very confidently tells me it is a plasmid... I would like to check it myself...

Cheers!