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Dear Jonas,
I read the paper and I've to congratulate, because is really interesting! I contact to you because I'm interested to use BayesTyper to genotype my samples. I've 808 samples (at 30X) whi…
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We're trying to use SNParcher on some fairly large genomic datasets at the moment (2000 + individuals), and I am anticipating a lot of slow-down at genotyping steps. I was wondering if it's possible t…
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Hello jyhehir,
I have one question related to mobster vcfs (created with MobsterVCF).
Is it possible to genotype and/or annotate the resulted vcfs with any program? If so, could you give me some…
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Dear,
I only want to know which format return the program... I ran several programs to detect de novo insertions, but I want to know if the vcf which I send is overwrite with GT information.
Tha…
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Hello,
Thanks for this fast and useful germline calling tool. When I used DeepVariant 1.6.0 for single sample WES germline calling, I found that some real germline mutations with VAF (variant allele …
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Hi Jerry,
I am using fdstools v2.1.0, and while analyzing the DYS389II locus, I set up flank and repeat parameters. However, the analysis results are mixed up with DYS389I, making it impossible to …
siyao updated
2 weeks ago
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Hi,
I am currently running smoove on manta outputs and wanted to know if smoove genotypes based on lumpy or does it only consider the existing genotyping generated by manta?
Thank you!
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One genotyping vendor types HLA using RT PCR / Taqman approach. It seems similar to SSP, and that can work in this case, but if there are future HML versions maybe we discuss if this is needed.
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Hi Jana,
Since PanGenie relies on exact kmer matches, I want to know if it will perform well with input SVs that have imprecise breakpoints? Have you investigated how inaccurate breakpoints impact …
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I as wondering if AsmVar does "joint genotyping" of multiple samples, analogous to what GATK does for SNPs?
Does AsmVar do break-point resolution? For example, if I have a population samples with s…