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## Description
Sessions are currently handled in a non-standard and non-explicit way in cg, which risks causing issues with incomplete transactions etc.
The main issues consists of:
- Sqlalchemy …
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The table on https://covariants.org/shared-mutations shows the shared aa substitutions caused by shared nucleotide mutations; amino acids aren't subject to mutation, only nucleotide sequences. It woul…
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@matted @tw164 Can I use VCF file directly as input file?
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Hi.
I first map the paired end reads to `.vg` graph. Then use vg surject to convert the `.gam` file to `.bam` file. Then I use `graphtyper `to do genotyping. But there is an error: `Reads with name=d…
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I'm trying to prepare the genotyping data from a multiparental MAGIC population by applying the described format 123 for AA, AB, BB. I have a PED file with PLINK genotyping format 0 1, where 0 stands …
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Hi,
I want to genotyping the chr21 using command:` graphtyper genotype GRCh38#chr21.fa --sam=chr21.sorted.bam --region=chr21`.
But there seems to be something wrong with it. The result only contain…
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### Due date for Sprint 11 - May 16th.
### General
- [x] Improve installation instructions so that the annotator can be installed without issue on Amazon Linux 2023 - @dlin30 - 2024/05/08
### Prote…
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| Column Header | Description | Format …
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Dear @joellembatchou ,
I have read the FAQs and #271 and understand that step1 aims to capture genome-wide polygenic effects. I would like a bit more advice in performing rare variant associa…
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Thank you for conducting this comprehensive benchmark that compares so many different HLA genotypers 👍 .
I was reading your biorxiv manuscript and noticed that you just included T1K in your evalua…