Catalog3 is a new format for tracking CPTAC3 and other sequence data provided by GDC and other sources. It is described here: https://docs.google.com/document/d/1uSgle8jiIx9EnDFf_XHV3fWYKFElszNLkmGlht_CQGE/edit#
Catalog was created with the "TCGA" branch of CPTAC3.case.discover. This is a development project and subject to change.
BamMap3 is a simplifed BamMap format which consists of just 4 columns. It can be generated from BamMap2-format files with,
$ bash make_BamMap3.sh -i ../BamMap/storage1.BamMap.dat -o storage1.BamMap3.tsv