-
As the titles says, I think that aldy needs a chromosome notation in the bam header without the 'chr' tag. At least for my files.
```
aldy profile out.bam > my_profile
*** Aldy v2.2.6 (Python 3.7.…
-
my command = python3 star_caller.py --manifest manifest.txt --genome 38 --prefix test --outDir result --threads 8
INFO:root:Processing sample HSxx at 2020-12-14 15:39:01.967956
xx/Cyrius/depth_calli…
-
**Is your feature request related to a problem? Please describe.**
CYP2D6 is one of the most relevant pharmacogenomic genes, involved in drug metabolism and with clear precision medicine application.…
-
### Problem: __"genes"__ for the guideline queries are resulting as __'null'__ for all but the PPI and NSAID guidelines.
`curl --location --request GET 'https://api.cpicpgx.org/v1/guideline?select=…
-
We intend to run Cryrius on a cohort of 10K Asian genomes which have been analysed with the GATK4 best practices pipeline. Whilst running some tests, I've noticed that I consistently get a genotype of…
-
I am trying to zoom into a specific region of my chromosome.
The code below works with no issue in R studio.
![Plot Rstudio](https://user-images.githubusercontent.com/60882704/100367113-0a8cce80-3…
-
Welcome to the Scout user meeting @9:00-10:30 am!
However, due to the current situation we will aim to host this on zoom.
Location: https://ki-se.zoom.us/j/64978058661
Please help us fill t…
-
Medaka(1.0.3)_variant does not call real indel for the CYP2D6 *9 c.2615_2617delAAG. For comparison, I used deepvariant with default settings and it calls it. (snapshot)
![igv_snapshot](https://use…
-
Hello,
I got a following error:
`error: faidx could not get contig length for contig 22`
I am running this command:
`python3 nanopolish_makerange.py paternal_CYP2D6.fa | parallel --results nan…
-
When I run the following command :
`python -m aldy genotype -p 1813PG.bam -g CYP2D6 1856PG.bam`
I get the following error
```
'utf-8' codec can't decode byte 0x8b in position 1: invalid st…
dridk updated
4 years ago