User: mo.imranshah

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mo.imranshah10
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Posts by mo.imranshah

<prev • 4 results • page 1 of 1 • next >
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Answer: A: VCF evaluation for reporting
... Not sure about clinical validation; however, you can use web-based vcf iobio tool https://vcf.iobio.io/. This would provide you an interactive visualization where you can check various stats such as Variant Density, Ts/Tv Ratio, Allele Frequency Spectrum, Base Changes, Variant Types, Insertion & ...
written 6 months ago by mo.imranshah10
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Comment: C: Ensembl variant effect predictor fails if REF or ALT allele has a length around
... https://www.biostars.org/u/30/, Could you please suggest what would be the optimal length to go with and exclude insignificant variants. Thanks. ...
written 12 months ago by mo.imranshah10
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Comment: C: Ensembl variant effect predictor fails if REF or ALT allele has a length around
... Thanks Ben for a quick reply. Hope to see a better performance of VEP in such cases. Meanwhile, I would go with your suggestions. Best, Imran ...
written 12 months ago by mo.imranshah10
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Ensembl variant effect predictor fails if REF or ALT allele has a length around 0.5 million
... I have been using VEP (variant effect predictor) from Ensembl for annotating VCFs produced by GATK's haplotype caller and PINDEL. The VEP is failing for some of the VCFs with the following error: > -------------------- EXCEPTION -------------------- MSG: ERROR: Forked process(es) di ...
vcf ensembl vep vcf annotation written 12 months ago by mo.imranshah10

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