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abyzovlab / CNVpytor

a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads
MIT License
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CNV circular map #159

Closed zainabae closed 1 year ago

zainabae commented 1 year ago

Hello, is there any way to draw circular CNV map directly with Pytor files instead of using vcf files?

image

suvakov commented 1 year ago

Circular plots are generated directly from pythor file. However, circular plot depend on information about SNP BAF, so pythor file should contain information from VCF file previously imported. Using BAM/CRAM file is optional (see. alternative, green, path on pipeline figure: https://github.com/abyzovlab/CNVpytor#use-as-a-command-line-tool).