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broadinstitute / gdctools

Python and UNIX CLI utilities to simplify interaction with the NIH/NCI Genomics Data Commons
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MAF counting is very broken #21

Closed noblem closed 7 years ago

noblem commented 7 years ago

Look at the test suite of GDCtools, driven by the Makefile and tcgaSmoketest.cfg: even if only 2 cases are downloaded, N mafs are listed in the sample report, due to the code unpacking the aggregate MAF for a cohort into its N constituent samples MAFs.