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Greetings,
Thank you so much for this amazing tool!
So I am checking the consistency between the SV calls after randomizing and splitting the reads into two equal datasets. Each dataset is of arou…
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Hello, I am currently using Sniffles for Multi-Sample SV Calling and have combined 18 samples. In one of the variant outputs, I encountered the following entry:
I would like to inquire about the me…
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I am looking to use Varlociraptor to call SVs using candidates from several upstream callers (Delly, GRIDSS, Manta). Is there a recipe for how to configure Varlociraptor to do this?
Specifically, I…
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Dear professor,
Thank you for creating such a great software.
I have a question that I would like to consult with you. I am using the workflow you suggested. After linear filter alignment, errors …
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Hi, first I want to say this is a very nice tool.
My question is in regards to calling phased variants. I currently have phased assemblies, and have called SVs with SyRI. I would like to use this …
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Hello,
I am trying to use a variation genome graph to genotype SVs on more samples sequenced with short-reads, and I'm trying different avenues (see 1)graph from vcf + giraffe and 2) graph with pggb+…
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Hi,
Thank you very much for developing the suite of SV calling tools.
I am using INSurVeyor and SurVIndel2 to call SVs for individual samples, and then performing clustering across individual calls…
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Hi,
My primary aim is to check for de novo SVs in a trio. A de novo SV was detected in a known gene from microarray. Multisample SV calling did not result into it. However, when the proband was run…
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Hi,
I used SVision-pro to call somatic SVs, but the number of somatic SVs identified is relatively low, only around 500. In comparison, when using pbsv, the number is over 5000. Is it normal?
Be…
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Dear Tobias,
I am presently executing the somatic structural variant (SV) calling pipeline on data from 173 patients. I've observed that processing one sample typically requires around two days. Th…