Visualizing intermediate analysis of Classfication

[idmjky]

Hi,
THanks for writing this great package. I used it to predict transposon for some genomic sequences and got some reasonable predictions. However, the output file only lists the predicted class of transposon along with a probability for each transposon. I would like to see the TIR/kmer it used to classify this, and some annotation on why it predicted the sequence as a certain class. Do you know if this is possible within the package?
Best,
Albert

[DerKevinRiehl]

Dear Albert,
thanks for your interest in transposonClassifierRFSB.

I am afraid it is not possible.
If you would like to learn more on which features are used for classification you can have a look in our publication.
Besides, the transposonAnnotationTool "reasonaTE" in the TransposonUltimaTE package provides annotations for certain transposon specific subsequences such as TIR, transposase and others. Maybe it could be worth having a look on this tool.

Best, Kevin