kma file for Intron Retention analysis

[vgarciavc]

Hello, thanks for providing us with this great biocomputational tool.
I am just starting in the bioinformatics world and I am going to start using ISOTOPE with my RNA-seq data from my cohort.
Before I start, I have two questions about the functionality of Intron Retention. Studying the code, I see that the file with normalized abundances values for each of the samples with which ISOTOPE starts must be obtained with Kma. Looking at the Kma code it is not clear to me if this dataset would be obtained when the intronretention object is created or from which data it should be obtained.
Also, I would like to know which gtf and genome you recommend for all these analyses (ensembl, UCSC, etc.).

Thank you very much