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hey,
I find this tool only support A/B/C , it is work for other alleles ?
Expecting your reply !
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Hi,
I'm wondering how I can make a `--quilt_hla_supplementary_info_file` for hg19. I guess I can liftOver the file provided in the Github repo, but I hope to add more genes, like `c('A','B','C','DPA1…
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The multiple sequence alignments in the `data` folder are almost 2 years old. Since then, many new alleles have been discovered and recorded in IMGT/HLA and existing alleles have been renamed or impro…
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When i use hla_scan on WGS data.sometimes i get wrong :ERROR: wrong HLA gene
i use :
hla_scan –b [Bam file] –v 38 –d dir_to_db/db –t 8
no matter i add -g or not ,it still wrong.
sometime it go …
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As far as I understand it from your paper, BigMHC supports predictions for all human class I alleles. However, it doesn't restrict the input provided to the -a option to only human class I HLA alleles…
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Hi,
OptiType has been reported as one of the best performing tool for genotyping HLA Class I alleles, but unfortunately, OptiType does not type HLA Class II alleles, which may limit its clinical util…
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Hello, team.
First I want to say thanks to this nice tool.
Other functions in this tool work good like _genotype_. in my single cell RNA sequencing data (+single end).
I downloaded this tool f…
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I want to convert the predicted HLA peptides into a speclib with peptdeep & run it in DIA-NN. Is there an option to include the protein name/ FASTA header in the output when doing this?
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Hi Jonassibbesen !
When I used adding_haplotype with AMR population of 1000 genome project, i got this error:
"[vg mpmap] elapsed time 0 s: Executing command: vg mpmap -t 16 -l long -F GAM -x ~…