Standalone Gc Correction Tools

Question

[Plantae]

hi, all,
i try to find CNVs from a high-depth resequenced sample (>30x), which is a plant species.
however, several CNV detect tools could only be used for human genomes,
i am wondering if there are some standalone tools that can get gc-corrected read counts using BAM file as inputs.
then we can use call CNVs based on these corrected values.

Answer 1

[R Ravi]

Hi,

Why don't you try CNVnator, it does GC corrected profile analysis using mean shift approach.

Link: CNVnator