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When analyzing automated test runs, I've noticed a lack of edges/records from Automat APIs - and that seems kinda odd.
We'd need more investigation to see if Automat is truly returning no records f…
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We've been running the CYP2D6 genotyper on NA12878, with outputs as follows:
```bash
tree cyp2d6/
cyp2d6/
├── alleles
│ └── NA12878_cyp2d6.alleles
└── variants
├── NA12878_cyp2d6.vcf.gz…
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Hi @GemmaTuron,
In the `data` folder there are `all_molecules_$MODEL_ID.csv` files that I calculated
I suggest we do the following plots using a Jupyter Notebook:
1. A histogram or density p…
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Hi,
I am trying to use T1K for PGx, following the step-by-step plan described in the vcf_database. Unfortunately, I am not getting the expected results for my samples (for example, I get for the CY…
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Hello,
I've managed to run StellarPGx on thousands of samples. I did have to rewrite the nextflow pipeline in python because of restrictions in my environment. I have a set of 11 samples that are all…
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Hello,
I would like to have your help on understanding the CYP2D6 genotyping result that's seemingly incorrect.
I ran pb-StarPhase for a trio and observed a mendelian error as follows.
proband:…
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/* --- PROJECT - VARIANT PREDICTION IN CYP2D6--- */
Investigate CYP2D6 Pharmacogenetic Variation:
- Involved in metabolism of nearly 25% of clinically prescribed medications
- Highly polymorphi…
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There appears to be a conversion from a comment to a ";" intended to make a label when there is a comment within a parameter definition.
``` r
library(nlmixr2)
#> Loading required package: nlmixr…
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Pharmaceutics. 2020 Dec 11;12(12):1200
https://pubmed.ncbi.nlm.nih.gov/33322314/
Simeon Rüdesheim, Jan-Georg Wojtyniak, Dominik Selzer, Nina Hanke, Felix Mahfoud, Matthias Schwab, Thorsten Lehr
…
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Hello;
Thank you for developing this tool.
I got a Warning message from my sample:
```
cyrius -m bam_manifest.txt -g 38 -t 20 -p genome_cyp2d6 -o genome_cyp2d6
INFO:root:Processing sample d…