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Hey,
I find this allele name "HLA39951,DRB3*03:70" in IMGTHLA_3.56/Allelelist.txt , but there is no its allele genomic sequence in IMGTHLA_3.56/fasta/DRB3_gen.fasta .
could you tel…
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Start with one typing a P group level and one typing reported at G group level and illustrate the process for determining if the two genotypes are high resolution matched based on NMDP standards.
S…
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A core requirement for the Value Object Descriptor (VOD) captures is the ability to record alternate names/expressions for the wrapped object. We proposed to use the following VOD attributes for this:…
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The workflow/envs/optitype.yml environment is limited to NUMEXPR_MAX_THREADS" (64). This applies only when setting the threads number higher than 64.
```
Error. nthreads cannot be larger than envir…
riasc updated
5 months ago
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Hi,
I had recently been able to run the nextNEOpi pipeline through (after some minor modification). When looking at the results section I noticed that the `./results/neoantigens/[sample]/Class_II`…
dmgie updated
5 months ago
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Hi Folks
I am having trouble getting bcbio to run on my torque cluster with variant2.
I updated to the latest development release, but it was giving the same problem before.
The cluster has 1…
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First of all, thanks for developing such a powerfull tool.
I have clinical background on clinical HLA typing and I have checked the output from the example you provided
where one can generate an …
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Hello,
When using SpecHLA.sh on paired-end RNA data, I get no results for any HLA alleles. The hla.result.txt file is as follows:
```
# version: IPD-IMGT/HLA 3.38.0
Sample HLA_A_1 HLA_A_2 HLA_…
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Like [T1K](https://genome.cshlp.org/content/33/6/923.long), can Isofox accurately infer HLA and KIR mRNA abundances given that hg38 poorly represents most people for such genes?
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Dear manager,
Thank you for the nice benchmark of different HLA typing tools. We would like to access the HLA typing results of TCGA samples, especially the typing result which are consistence in dif…