Milad Miladi

Hi @jts , I have got stumbled on the expected input of the eventalign range option. There are cases where the output tsv is empty with no errors: ``` nanopolish...

Hi @marcus1487 , Thanks much for the comprehensive description. I add below the updated list based on your feedback. Available metrics: * `de_novo`: `fraction`, `dampened_fraction` * `alternative_model`: `fraction`, `dampened_fraction` *...

I have one other question regarding the thresholds for the effect-size. The concept is less commonly understood than the p-value. What is a *typical* threshold that users consider in the...

Thanks! This would worth it to be added somewhere in the documentation.

Thanks much for the detailed info. I thought you use locarna_rnafold_pp inside mlocarna. We wanted to check it for the Bralibase benchmarking, so for the moment --rnafold-parameter was fine. However...

Thanks much for pointing this out. No I had not excluded the secondary alignments as default was -N=5. About the minimap2 I used `-x splice -k 14 -uf`, wouldn't `-x...

@bgruening @s-will : Do we have exparna-p and sparse in the new locarna wrapper?

@s-will I see. Are these the two files the ones that I should change to add sparse specific params? https://github.com/bgruening/galaxytools/blob/master/tools/rna_tools/locarna/locarna_multiple.xml https://github.com/bgruening/galaxytools/blob/master/tools/rna_tools/locarna/locarna_pairwise.xml PS: I am back into the locarna train :-D...

For the updated xml files, what tests should be checked? planemo lint?

Features of this PR will be covered by the new PR: https://github.com/bgruening/galaxytools/pull/495