[RNAdam-24] Upgrades to ADAM 0.13.1-SNAPSHOT.
Merge pull request #25 from fnothaft/upgrade-adam

[RNAdam-24] Upgrades to ADAM 0.13.1-SNAPSHOT.
[RNAdam-22] Adding stubs for Sailfish-based transcript/isoform quantification method.

I borrowed the (gutted) gene models from PR 327 against ADAM. These will be removed... soon.
Merge pull request #26 from fnothaft/quantification-stubs

Adding stubs for Sailfish-based transcript/isoform quantification method.
[RNAdam-19] Fixing ADAMRecord and ADAMContig references.

Updating the use of ADAMRecord to AlignmentRecord, and ADAMContig to Contig,
within the core Defuse classes and support models (ReadPair).