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Hello ,
I am trying to run structural variants annotations using annovar. Do annovar support it? If so can u help me with how to toggle structural variants input so the algorithm can get that?
R…
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Greetings!
A suggestion to integrate "FINDbase" database in ANNOVAR.This database records include the population and ethnic group, the disorder name and the related gene, accompanied by links to an…
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Hi there!
I'm using table_annovar.pl to annotate some variants with some in-house annotation values.
This step comes after employing convert2annovar.pl to convert a vcf file into an Annovar-specif…
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I am currently comparing the IMPACT categories HIGH, MODERATE, LOW and MODIFIER of VEP, snpEff and ANNOVAR.
```
perl $ANNOVAR/table_annovar.pl ${SCRATCH}/$FILEBASENAME/$interval.vcf.gz $ANNOVAR/h…
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Hi team.
I trying to (from 2 months ago) download new vertion of ClinVar database by this command:
`./annotate_variation.pl -buildver hg38 -downdb -webfrom annovar clinvar_20221231 humandb/ `
Bu…
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Run the example data, I receive this error:
python NeoPredPipe.py -I /mnt/bwa-0.7.17/wes/gatk4/gatk-4.0.6.0/0809_somatic.vcf -H /mnt/bwa-0.7.17/output/arcasHLA/arcasHLA/HLA/HRR572954.genotype.json …
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Hello,
```
[c.c21087028@cl1 c.c21087028]$ module load annovar
ERROR: annovar requires a software licence to use, please register at https://annovar.openbioinformatics.org and contact SCW support…
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Dear Q the link to dependencies file is broken. I am having problems which the annotations from the annovar (function and exonic functions) are not added to the out put file. I was wondering may be it…
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Hi Prof. Wang,
Can you give a example how to create custom `region-based` db and use it in `table_annovar.pl` command together with ANNOVAR pre-prepared db. I have tried several different way and…
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Hello,
I get a multianno file, but I also get these messages.
```
NOTICE: Multianno output file is written to example/PRE_02_hg19.bin.sorted.withoutchr.hg19_multianno.txt
annovar_outfile is ex…