Added support for SEE ALSO and further cleaned up code and text samples prior to doxygen processing.
Added support for SEE ALSO and further cleaned up code and text samples prior to doxygen processing.

willmclaren/ensembl,Ensembl/ensembl,muffato/ensembl,james-monkeyshines/ensembl,danstaines/ensembl,danstaines/ensembl,mjg17/ensembl,Ensembl/ensembl,danstaines/ensembl,mjg17/ensembl,Ensembl/ensembl,muffato/ensembl,at7/ensembl,james-monkeyshines/ensembl,james-monkeyshines/ensembl,mjg17/ensembl,james-monkeyshines/ensembl,mjg17/ensembl,muffato/ensembl,at7/ensembl,Ensembl/ensembl,muffato/ensembl,willmclaren/ensembl,at7/ensembl,at7/ensembl