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Thank you for developing this excellent tool!
I am also from Wuhan, China. Congratulatations on your remarkable achievements!
I encountered the following issue while following the tutorial for 'Ru…
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When running "arcas genotype fastq1 fastq2" I consistently get the error that there is no such file or directory for hla_nom_p.txt. Specifically " No such file or directory: 'Desktop/anaconda3/share/a…
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Great tool however, header is mangled. for example: main hg38 contigs (chr1-chrY) get chopped off in the output and only HLA contigs -> ALT contigs appended to the VCF header. please fix.
for examp…
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Two things to check for:
* There should not be more than 2 HLA code for HLA-A, HLA-B, HLA-C
* The input file for a list of pairs should be given to `multiprocess_aams.py` with the names of the…
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Hello,
I am trying to run hisatgenotype. I installed both hisat2/2.2.1 and hisatgenotype. Here's my exact command:
```
python3 /cluster/home/user/hisatgenotype/hisatgenotype --base hla --locus-li…
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Please can you add Lanseria International Airport - https://en.wikipedia.org/wiki/Lanseria_International_Airport
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Prepare HLA and LOH-HLA data for 40k study:
LOH-HLA data:
make script to generate LOH-HLA data
- For patients with multiple normals, keep the one has TRUE in `use_for_patient_level_genotype` colu…
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Hi,
I am trying to run "test_whole.sh" with example data "whole".
but it gives the following error at "phase_variants.py" step.
I lack novoalign lic so the script use bowtie2 instead.
Hoping …
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We are finding examples where batch level R2 > 0.3 for all batches but the output R2 from hds-util is < 0.3 and thus the variants do not end up in the output data when using the -m 0.3 option. While …
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I am having an issue trying to flash the NRF52832Y board and was wondering if anyone has configurations for successfully doing so.
I tried flashing it using an ST-Link V2 with the default Openocd…