Access older versions of cBioPortal mutation data?

[nehawali21]

Thank you so much for your helpful R package to obtain mutational data from cBioPortal! I've been using this for well over a year now and really appreciate its tidy approach to get clinicogenomic information on tens of thousands of cases.

I've run into a slight snag in the past few weeks though. Although I use a static sample list to get mutational data via get_mutations_by_sample(sample_study_pairs = studiesandsamples, genes = "TP53"), it seems like with the public cBioPortal database's recent updates, the mutationStatus annotations have changed for a few samples, in which they were previously documented as germline and now aren't. So now my filtering out of germline-mutant samples does not remove samples from two patients as it should and my numbers for calculations are consistently thrown off.

Does get_mutations_by_sample() always pull from the latest version of the public cBioPortal database? Is there a way to specify which cBioPortal version or a particular date of the public-facing version of cBioPortal the function pulls mutational data from for specified samples and studies?

I've also posted a question about this on the cBioPortal GitHub in case the team is able to lend insight on this.