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Hello,
I am attempting to download a database associated with snpEff v4_3, and running into an error addressed in [this issue](https://github.com/pcingola/SnpEff/issues/294), where the server appea…
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Hi,
Not sure if I have done anything wrong...I used snpeff to annotate the vcf but found that it gives me different gene names than what it supposed to be.
e.g. ch2 174341924 should be Gnas but …
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Hello, I am trying to add custom content to my MultiQC reports, specifically, single cell RNA-seq knee plots. Every pre-made module works just fine and recognizes the files they need, but MultiQC does…
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While building a SnpEff database using NCBI Genebank file the tool is unable to read the protein sequence details mentioned in the file.
Command line:
`bash ./scripts/buildDbNcbi.sh NC_012920.1`
…
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Hi,
I had some builds fail because of the download server for the pre-made databases being unavailable - I am guessing the host went down? This was with snpEff 5.0.0
snpEff download NC_045512.2
…
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Via Paul Stretenovich
>>>>>
* Test dataset: could we use the one for cit?
* Example Run: Is the default use on beluga or do we want to use only base.ini?
* In Host reads removal the reads are no…
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We're using SnpEff for predicting the distribution of variants using a VCF from a SNP calling pipeline. We're building a new database using our internal reference genome and gtf. However, we do not ha…
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View details in Rollbar: [https://rollbar.com/jimmy.andrews/VariantGrid/items/2716/](https://rollbar.com/jimmy.andrews/VariantGrid/items/2716/)
```
User Feedback : Protein length
```
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In `sample_has_variant`:
- gt is of type str: All data here is ints; is it normal ?
- ad is of type int: But contain only floats (REAL in SQL);
- ad: idem
- gq: idem
- qss: idem
Can you revi…
ysard updated
3 years ago
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**Revise the current pipeline:**
A) using **RUN** to loop through samples (parallelisation on the cluster)
`export RUN=0` # initialise the Variable (BASH starts with 0 rather than 1)
**determi…