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hi~ I had got a problem. It feels like there are something wrong with the database. I had downloaded the database twice.
tar -xzvf /Workspace/Software/icages-1.0.2/db.tar.gz
./db/
./db/cgc.gene
./…
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Hi!
I'm trying to implement mvPPT to annotate and prioritize some variants.
I took advantage of the pre-computed scores you provide but I'd like to fully run your tool too.
I'm struggling rebuild…
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when I use ISOWN to analyais tumor only somatic data, it was interrupted when step1 was performed. Check the cause,I found it breaks when analysis qpipeline tabix .
cmmond:/software/ISOWN/ISOWN/bi…
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Hello!
We have a few enhancement requests to make. Mainly concerning the outputs -
- HTML output to include variants of interest
- HTML output with population filtered variants
As it stands…
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Was it easy to document?
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first
/lustre/work/shufan/RD/Software/bcftools/bcftools-1.9/bcftools filter -o /mnt/rorke/work/shufan/Test/NeoAntigen/DNA/19705CS/Nomatch/mid/591097_tumor.filter.vcf -m x -e **'INFO/EAS_AF>0.001 || …
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Hi, I've downloaded gnomad211_genome.txt and gnomad211_genome.txt.idx from annovar and put it into the humandb folder. How can I enable InterVar to annotate variants based on gnomad211_genome rather t…
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Dear sir,
I need splicing annotation such as "NM_001008393:exon2:c.187-2->T".
However the lastest verson od annotation was "NM_006015:exon12:r.spl", I try to use "-exonicsplicing" argument, but it d…
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Greetings,
I am trying to run the VCF file of 38,000 variants. The rest of the databases run effiicently but it's taking almost 20-30 minutes in dbnsfp (although the index is generated) annotation.…
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Dear Sir,
When I used the command below to calculate TMB, it happens to some error:
python ../../bin/pyTMB.py \
-i ./629066_190229.snp_indel.filter.vcf \
--effGenomeSize 33280000\
--v…