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Error: require the same format for all variants. #102

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hsymoon opened this issue Jun 4, 2024 · 1 comment
Open

Error: require the same format for all variants. #102

hsymoon opened this issue Jun 4, 2024 · 1 comment

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@hsymoon
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hsymoon commented Jun 4, 2024

I have a vcf.gz(single cells snp information) and a donor snp.vcg.gz.I want to use viero mode2,Here is my command:
vireo -c $cell_sampe.vcf.gz -d $donor.sorted.vcf.gz" -o ./ -N 4 --randSeed 2 --genoTag PL

But viero says:
[vireo] Loading cell VCF file ...
Error: require the same format for all variants.

I check my cell.vcf.gz and donor.vcf.gz , both have the same header .Can you tell me what is problem?Thanks very much.

Blow are my cell information:
image

Blow are my donor information:
image

@huangyh09
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Hi, thanks for sending the issue. Did you use cellsnp(-lite) to get the cell VCF $cell_sampe.vcf.gz? If not, you may simply try that.

Currently, the issue is likely due to that the FORMAT column is different for different variants.

Yuanhua

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