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Hi all,
a quick question about supported/expected filtering logic, especially for ontology terms:
Reading the [documentation](https://github.com/ga4gh-beacon/beacon-v2/blob/main/docs/filters.md) …
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The MAC codes that have allele field expansion should only work with the same antigen field as that in the MAC.
`DRB1*07:DFJR` expands to `DRB1*15...`, `DFJR` for DRB1 should only be valid for `DRB…
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https://github.com/InformaticsGenomicMedicine/DraftCoreDataModel/blob/79450932a44ee677816f9c02e6f5660ea03e5ec1/src/core_variant.py#L145C24-L165
This method needs to be more flexible. Please:
1. Ad…
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Hi, In **mhcflurry**, inappropriate dependency versioning constraints can cause risks.
Below are the dependencies and version constraints that the project is using
```
six
pandas>=0.20.3
tens…
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hi, your tool is wonderful and your tutorials are very detailed. However, I encountered this error when running the T antigen workflow.
In [14]: snaf.JunctionCountMatrixQuery.generate_results(path=…
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### Description of feature
As discussed in our meeting from 30th March 2023, we should already think about implementation of quality control and filtering routines for the input VCF files. This Issue…
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#### Are you using the latest version of [samtools](https://github.com/samtools/samtools/releases/latest) and [HTSlib](https://github.com/samtools/htslib/releases/latest)? If not, please specify.
(ru…
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When creating an allele that only differs by its expression from an existing allele, Canto still creates a new allele object, even though it could theoretically reuse the existing allele.
For examp…
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I'm having trouble finding an example of methods to extract stats like allele frequencies from individual subpopulations. Using:
```
[simu.dvars(subPop=[1]).alleleFreq[0][1]]
```
Generates an erro…
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Thanks for the great package!
I would like to run MatrixEQTL on only samples that are heterozygous for the respective snp of interest.
For this I input a vcf file in which all homozygous snps ar…