Hello
I'm trying to use polysolver to do HLA typing from exome data.
What does it means if I get 'winners.hla.nofreq.txt' instead of 'winners.hla.txt'?
I always get this filename as final output and it always shows the specific HLA type as below.
-e HLA-A -e hla_a_01_01_01_01 -e hla_a_01_01_01_01
HLA-B -e hla_b_07_02_01 -e hla_b_07_02_01
HLA-C -e hla_c_01_02_01 -e hla_c_01_02_01
Those are not what I expect to get.
This occurs even when I set inappropriate path for bam file (it complains at first unable to find the bam file, but keeps calculating and gives 'winners.hla.nofreq.txt' finally).
I also tried both 0 and 1 flag for 'includeFreq' option, but it doesn't make any change.
Another HLA typing program predicted HLA-A and C, so my exome data should contain enough reads to cover at least HLA-A and C allele.
Hello
I'm trying to use polysolver to do HLA typing from exome data.
What does it means if I get 'winners.hla.nofreq.txt' instead of 'winners.hla.txt'?
I always get this filename as final output and it always shows the specific HLA type as below.
Those are not what I expect to get.
This occurs even when I set inappropriate path for bam file (it complains at first unable to find the bam file, but keeps calculating and gives 'winners.hla.nofreq.txt' finally).
I also tried both 0 and 1 flag for 'includeFreq' option, but it doesn't make any change.
Another HLA typing program predicted HLA-A and C, so my exome data should contain enough reads to cover at least HLA-A and C allele.