lumpy not calling CNV - Githubissues

arq5x / lumpy-sv

lumpy: a general probabilistic framework for structural variant discovery

MIT License

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lumpy not calling CNV #360

Open kghimire09 opened 3 years ago

kghimire09 commented 3 years ago

Hi @ryanlayer,

I have WGS 10x coverage paired-end fastq files and I want to call CNVs on these files. I aligned the files using bwa, and called lumpy traditional on it, but somehow lumpy is not calling the required CNVs. We know the genes where the variants occur. Could you please help me with this.

Thank you