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Hello!
Thank you for creating a great pipeline for assessing HLA imputation accuracy. I am planning to use HIBAG for imputing Sudanese genomes. Where I could obtain HLA_Type_Table for individuals o…
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Hello,
I was looking through the given fasta files under data directory and noticed that some of the sequences provided in there are combinations of coding sequence and non-coding sequence.
What p…
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Hi,
I'm trying to map and call alleles on fastq files from TCGA. However, out of the 400 samples I've run, only a very small number were called. The failed ones (as indicated from the output below)…
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Replicate the Germline Exome & HLA typing stepwise on AWS and record documentation on Google doc.
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Hi
For some downstream analysis I need to identify the fasta sequence used for the hla allele called.
For instance, if optitype called `A*01:01` I would need to know its fasta sequence, which would…
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Hi Jason,
Thanks for doing a great job making a USABLE version of the software.
I followed your instruction. Unfortunately, i am still getting an error
"perl: symbol lookup error: /PHShome/s…
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Hi.
I'm trying to use OptiType, but I get some warnings and errors. I assume that is related to pyomo, but not sure how can I solve it. Downgrade the version? I'm using version 5.2
```
WARNING…
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hdf5 resources are inavailable
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I have a custom MultiQC module called `target_phasing`, which can be found [here](https://github.com/lumc/multiqc_pgx). It runs in MultiQC v1.11 and before, but not in MultiQC v1.12 or later. The modu…
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# How to work with duplicate sequencing?
## Duplicate sequencing
In the DKTK Master programme, patients are sometimes sequenced several times, apparently from the same tumor sample (according to…