Detect CNVs in single sample using cn.MOPS

Question

[win]

Hi all,

Using cn.MOPS for CNV detection and it requires optimally 6 samples (6 BAM files) to effectively run the analysis. I am generating CNV plots for each chromosome but I believe it outlines the CNVs for all samples.

What I want is generate plots for CNVs detected in any one sample i.e. generate CNV plots for every chromosome for any sample. How can that be done?

Thanks in advance.

[mittu1602]

There are many other CNV tools that can fetch you graphs on the basis of chromosome, gene and individual sample. some are as follows: ControlFREEC ONCOCNV Cnvkit

Answer 1

[colindaven]

Why not use "related" public data from the same species using the NCBI SRA / EBI ENA (to get fastq).