Refactor of reads methods.

Similar to the refactor for variants, to allow arbitrary converters.
Rename the file holding the httr-specific code.
Refactored alignment plotting code into a vignette.

Plus other minor clean up to comments, error messaging, and the package README.
Fix markup syntax.
More markup syntax fixes.
Merge pull request #16 from deflaux/master

Refactor of reads methods.
Merge branch 'master' of github.com:ttriche/api-client-r into ttriche-master

Conflicts:
	NAMESPACE
	R/reads.R
	R/variants.R
	man/getReadData.Rd
Merge branch 'ttriche-master'
Restructured genomic coordinate conversion handling for variants.

Moved that logic into the converters.

Also:
* bug fix for readsToGAlignments converter
* restored Rproj file for running roxygen via RStudio
* bumped package version
* updated dependencies per R CMD check
Fix formatting.

By removing the .Rprofile note for now.
Fix plot label.
Merge branch 'master' of github.com:deflaux/api-client-r
Added package install instructions.

For packages that are not part of the GoogleGenomics R client per great feedback from @ttriche and @pgrosu
Merge pull request #19 from deflaux/master

Restructured genomic coordinate conversion handling for variants.
Merge pull request #1 from googlegenomics/master

pulled recent changes from @deflaux