[ADAM-311] Adding several simple normalizations.
Merge pull request #311 from fnothaft/simple-normalizations

Adding several simple normalizations.
[ADAM-335] Updated README.md to reflect migration to appassembler.
Merge pull request #337 from fnothaft/appassembler-update-docs

[ADAM-335] Updated README.md to reflect migration to appassembler.
[ADAM-340] Adding the TrackedLayout trait and implementation.

OrderedTrackLayout is an implementation of TrackedLayout, which takes a sequence of Reference-mappable values and lays them out into tracks in a naive, order-dependent way.
Merge pull request #341 from genomebridge/tdanford/tracked-layout

[ADAM-340] Adding the TrackedLayout trait and implementation.
[ADAM-332] Upgrades ADAM to Spark 1.0.1.