move #column_indices from Gene to Object
extraction of cell values from several columns - extracted into separate method
fix
chromosome and strand aren't separate attributes of Transcript now, they were duplicating exons#chromosome/#strand
added GenomeRegion#contigious? strand became symbol instead of string
chromosome is now a synbol too
ensembl reader added
extract list-->hash conversion into its own method
IntervalAlgebra extracted in a module
style fixes, SemiIntervalSet is now discontigious by definition
optimise interval algebra (remove case-statements touching Module#===, make less valid type comparison)
specs fixed about (one test fixed - about exception types of #region_adjacent?) and now use namespaces IntervalAlgebra classes