Hello, I've been using ONT's full-length transcript data for genome annotation recently, but it seems that minimap2 doesn't handle some complex regions very well. I had a great experience using winowmap for mapping HiFi data before, so I wanted to ask if winnowmap2 has specific parameters or modes for RNA-Seq data like this?
Hello, I've been using ONT's full-length transcript data for genome annotation recently, but it seems that minimap2 doesn't handle some complex regions very well. I had a great experience using winowmap for mapping HiFi data before, so I wanted to ask if winnowmap2 has specific parameters or modes for RNA-Seq data like this?