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I wanted to ask if this tool can handle fastq reads from Nanopore or PacBio. With a different aligner I can run xHLA and HLA-LA. My question is mostly about Optitype. Will it be able to handle long reads?
The text was updated successfully, but these errors were encountered:
@kokyriakidis Just a small question: how did you get xHLA to work on Nanopore fastq's? We're having some trouble currently. Did you use minimap2? Which reference did you use, Hg38 no alt contigs?
@kokyriakidis Firstly, thanks a lot! Second, we're using that, but still having some issues on public data. Any particular processing you used? Running their Docker image without any modifications?
Hello @lkuchenb ,
I wanted to ask if this tool can handle fastq reads from Nanopore or PacBio. With a different aligner I can run xHLA and HLA-LA. My question is mostly about Optitype. Will it be able to handle long reads?
The text was updated successfully, but these errors were encountered: