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Hi, I've tried to use `SBS()` function and it returns this error
```
> CNAqc:::SBS(x)
ℹ Using reference package: BSgenome.Hsapiens.UCSC.hg19
ℹ Processing n = 2989 SNVs via GRanges
Error in…
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#if $interval_file
cat ./strelkaAnalysis/chromosomes/\$int/somatic.snvs.vcf | grep -v "^#.*" >> $snvs;
cat ./strelkaAnalysis/chromosomes/\$int/somatic.indels.vcf | grep -v "^#.*" >…
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Hello, I've run the somatic workflow in Strelka2 version 2.9.2 on a tumour-only-calling assay. But I get the error: "Requested indel error rates for sample index 1 when only 1 samples are defined", "F…
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Seems to require at least 2 SNV = TRUE fields (maybe true for INDEL and dbnsfp too)
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Hi,
I'm trying to run snpgdsIBDMLE function from the SNPRelate package on a seqArray obtained from your example :
file
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I've added a dropdown field into the REDCap variant form with two options - SNV and CNV
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cc: @williamrowell
@tycheleturner observed some impractically large and sparse phase blocks when running `whatshap phase` on a standard 2x150bp Illumina library: the largest phase block is 173.3 Mb…
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Hello!
Thanks for developing and supporting whatshap!
I'm trying to phase (infer haplotypes) of a _Plasmodium falciparum_ test sample which is a mixture of 3 haplotypes.
First, I called varia…
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Dear aroth85,
Thank you for developing pyclone-vi,
I would like to use the software to caculate CCF from targeted DNA sequencing data. I have performed SNV/INDEL calling and CNV to obtain minor…
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I have a VCF file which is a merge of a set of VCF files and hence some columns have all values set to `.`.
```
##source=DRAGEN_SNV
##bcftools_mergeVersion=1.16+htslib-1.16
##bcftools_mergeComma…