HLA from RNAseq


#1

What is the tool you use for HLA typing from total RNAseq data? I haven’t tried any yet and would be very appreciative for good advice.


#2

Have a look at HLAgenotyper


#3

Thank you!
We performed some search and at this moment we are trying to use OptiType. Based on benchmarks it looks as one of the best for MHC-I. But it doesn’t work with MHC-II.
Will try the HLAgenotyper as well, thank’s.


#4

There is also Seq2HLA which does both MHC I and II. We have had success with it.


#5

Thank’s! Will try it as well.