Hello sir/ madam,

I am using GBM and LGG tumors data from GCD, I have refereed to the TCGAworlflow, TCGAbiolink packages. I want to compare the mutations between GBM and LGG tumor data. I know maftools is for the mutation analysis. I was following this tutorial (https://www.bioconductor.org/help/workflows/TCGAWorkflow/) where it combines the mutation information of GBM and LGG data and then it gives the summary plot of mutations using maftools.

So my question is,

1. is there a way to compare the mutations between two datasets, here for example: GBM and LGG ?
2. and if there is a way to do such comparison, then can anyone explain me this with a sample R code?

Any suggestions would be very helpful.

Thank you so much.