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fritzsedlazeck / SURVIVOR

Toolset for SV simulation, comparison and filtering
MIT License
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vcftobed conversion #182

Open priyambial123 opened 1 year ago

priyambial123 commented 1 year ago

Hello

To get the correct coordinates in the bed file, what is the minimum and maximum size to be specified in the code. The vcf dataset has structural variants, each spanning several base pairs.

./SURVIVOR vcftobed file _"/cohorts/bipolar_rerun_secondcleanup/pbsv/rerun_secondcleanup.GRCh38.pbsv.bed2.vcf" "/cohorts/rerun_secondcleanup/pbsv/GRCh38.pbsv.vcf.bed"

Thank you