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Controlled vs Public MAFs
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Entering edit mode
3 months ago
Jn Rmro • 0

Hi everyone.

I would like to do a pan-TCGA analysis. I am currently downloading MAF files using the manifests and the gdc data transfer tool. I've noticed 3 different MAF files to use:

  • mc3.v0.2.8.PUBLIC.maf.gz, from A, B
  • mc3.v0.2.8.CONTROLLED.maf.gz, from A
  • TCGA_consolidated.abs_mafs_truncated.fixed.txt.gz, from B
  1. How does the public MAF file differ from the controlled MAF file?
  2. What is the effect of running ABSOLUTE prior to MAF creation (getting more accurate results?)

Thanks.

A: https://gdc.cancer.gov/about-data/publications/mc3-2017

B: https://gdc.cancer.gov/about-data/publications/pancanatlas

GDC TCGA MAF • 129 views
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