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What read aligner are you using for RNAseq?
I've considered using tophat2, but not sure which one is widely used these days.. :thinking_face:
@brett.hayes81:u note that tophat is considered to be outdated.. (they even state so in their website) so you should try @hisat2 instead
@brett.hayes81:u @Roy.Wormi:u Definitely don't waste your time on tophat I'm working with the STAR aligner which is super fast and gives me great results. You can select if you wish to align to the genome and also transcriptome
@Roy.Wormi:u @Tim.Bradley:u Thanks for your suggestions! I've selected to use STAR (I found it's also the selected aligner used by 10X genomics, so it must be good). I found it very fast and easy to use.. but not sure how can one appreciate the output