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Do you plan to publish this quarterly in perpetuity or make the code available to do it?
I think this came from the Chicago retreat
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Hello there,
I hope all is going well on your side, and that you are having a wonderful day!
I just built a docker image for HLA-LA. For anyone interested, the Dockerfile is located here:
https…
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Hi
i have try HLA Release 3.40.0 and HLA Release 3.41.0,they all go wrong with DRB5.
And i noticed that Release 3.40.0 and HLA Release 3.41.0 noly have DRB_nuc.txt,but with DRB1_gen.txt,DRB3_gen.txt…
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Hello,
I am trying to update the hla db but without succeeding, could you help me with the commands?
I downloaded the files fasta, msf and hla.dat, replaced those present in the hisatgenotype_db / H…
ghost updated
3 years ago
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I registered a glstring "HLA-A*02:01:01:01+HLA-A*24:02:01:05" in 3.24.0 gl service and used the liftover service to make it 3.25.0, but glstring became an HLA-DPA allele + an HLA-A allele.
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Code:
```
28 def run_case(args):
29
30 id_, peptide = args
31
32 allele_type = "HLA-A*0201"
33
34 _log.debug(f"run case {allele_type} {peptide}")
35
36 target = …
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Hi,
I run HLA-LA on WES data. The data was bam files the pre-processed following GATK pre-process pipeline, where reads were mapped, duplicate marked, base quality score re-calibrated. samtools fla…
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Running graphtyper on GRCh38 with alt contigs, I get the following fatal error on chr6:
```
[constructor.cpp:159] FAI index has no entry for contig/chromosome 'HLA-DRB1*13'
```
Both the FASTA f…
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Calling `normalize_allele_name` on serotypes `A24`, `B07`, or `B44` currently gives the invalid allele names `HLA-A*24:01`, `HLA-B*07:01`, and `HLA-B*44:01`, respectively.
To do this correctly we…
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Hi all,
I run
```
user% ./NERVE.sh -epp False -vir True -rz True -p1 UP000000625 -wd /Users/ab/Applications/NERVE/docker/nerve/workdir/ecoli -g n -m True
```
and got :
```
wrote config …