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**What is this request referring to?**
miRNA variant
**What is the name you would like SO to give the term?**
miRNA_variant
**What is the definition that you would like for this term?**
A var…
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I'm not familiar with snpeff and filter snv
i try
```
java -jar snpEff.jar databases|grep gnomad
```
i can't found anything
mabey i should[ build database](http://pcingola.github.io/SnpEff/s…
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Create different kind of parser
- [x] Raw VCF
- [x] VEP
- [x] SnpEff
- [ ] Annovar
- [ ] Affymetrix
- [ ] MAF format
- [ ] Varank format
dridk updated
2 years ago
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I followed the instructions on how to build a .gtf file, for a simple use case where we have a CDS without introns from the ATG-to-the-stop codon.
When I create it in this manner:
```
cat Khann…
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**Version info**
- bcbio version (`bcbio_nextgen.py --version`): 1.2.5
- OS name and version (`lsb_release -ds`): "CentOS Linux release 7.9.2009 (Core)"
**To Reproduce**
Exact bcbio command you…
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1) Антон делает gff RM+TRF -> bed
2) SNP отфильтровать:
- по качеству (phred (?) Qual 30 (?) + grep)
Построить распрделение вариантов по Qual (опционально) -> посмотреть 30 или не 30
- отфильтроват…
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We can't run NTM-profiler 0.3.0 due to update_db failed.
when we tried to run NTM-profiler 0.2.0 inside docker container, we got the error. I have attached error text file in the tickets. Could yo…
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### Description of the bug
Singularity container retrieval failed when trying to download the nf-core/sarek pipeline. While making image from oci registry I got an error fetching image to cache and f…
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**Describe the bug**
Put the variant `GRCh37:17:41197726:AG:A` as VCF. Annotate with SnpEff and `GRCh37.p13`. See that it is predicted to be stop_gained for NM_007294.4. Compared with VariantValidato…
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dear all,
Im having problems to run snippy 4.6.0
When I --check dependencies, I receive the following message:
[11:09:57] This is snippy 4.6.0
[11:09:57] Written by Torsten Seemann
[11:09…