Hello MM DREAM,
I have a few questions that I am sorry if I have missed due to incompetence.
1. Are the methods of the MMRF data collection available, e.g. exome vs whole genome, whole blood used vs cell sorted, platform used, methods of collection/storage?
2. I have been having difficulties using the reference file specified in the vcf, and I assume that it is because aforementioned incompetence, but was the reference file used for alignment available?
Thanks for any information.
Created by Christopher Sugai csugai The MMRF methods are available via [MMRF Research Gateway](https://research.themmrf.org/). You'll have to register but it does not take long to get access. The RNA-seq based VCFs are generated by Celgene using Mutect2 but the sample collection is again described in the MMRF Research Gateway. Regarding the reference file, I was speaking in terms of the genomic vcfs, but I believe that having the reference for rna seq would also be very helpful to the other two challenges.