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### Resource and output dir:
```
/DCEG/Projects/Exome/SequencingData/DAATeam/Xin/ad_hoc/H_Pylori
```
### Testing Data
```
/DCEG/Projects/Exome/SequencingData/DAATeam/Xin/ad_hoc/H_Pylori/Data
``…
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Hi,
I have been trying to use HLA-LA for illumina standard WES data. Unfortunately, I'm running into a BWA error after the edge path generation:
```
[ Wed Jun 24 19:10:29 2020 ] extensionAlign…
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Hello,
can vdjer work on whole-exome sequencing data? or how to adjust the parameters to make it work for whole-exome sequencing data?
Thanks much!
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We you want to zoom into a gene at exon level you don't see the exon anymore. As shown by the following figure:
![org](https://user-images.githubusercontent.com/7941646/37516102-55365b58-290d-11e8-96…
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Issue by @Anuragksingh, moved from SciLifeLab#763
> Hello,
> I had some doubts over ascat.
> It would be really helpful if you can provide some insights about that.
> Can we use the available…
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Hi,
I would like to download a number of files suggested in the tutorial. Eg. gnomad_exome. However, I got error message.
Command:
`annotate_variation.pl -downdb gnomad_exome humandb/ -build h…
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The latest Gnomad version is now 4.0.0
We are running version 2.1 for exomes and genomes, and 3.1 for mitochondria.
[Link to Gnomad download page](https://gnomad.broadinstitute.org/)
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Dear RabbitQCPlus Team
I used RabbitQCPlus within a script to preprocess my exome seq samples with the following code:
~/RabbitQCPlus/RabbitQCPlus -i ../../$filename1 \
-I ../../$filename2…
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1. It looks like the dictionary contains entries for the gnomAD hemizyous counts (e.g. Allele_count_hemi_exome_AMR_GnomAD) but the build file doesn't contain these counts.
2. There appears to be a mi…
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Each BAM file in the recal folder has both a .bai and .bam.bai file. So far, only seen this in an exome, not a genome. Cause uncertain, it's possible that maybe one of the exome callers is creating an…