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single-cell-genetics / vireo

Demultiplexing pooled scRNA-seq data with or without genotype reference
https://vireoSNP.readthedocs.io
Apache License 2.0
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Error: require the same format for all variants. #102

Open hsymoon opened 5 months ago

hsymoon commented 5 months ago

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 commented 5 months ago

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