classifying events

Only two path events are considered. Probe to span mapping is made using gene model.

If any span contains a terminal exon the event is marked as alt_end or alt_start.

The skip and include paths are examined with counts of
exons, junctions and exonjunctions.

mode	skip exons	skip junctions	skip ej	incl exons	incl junctions	incl ej
If any span contains a terminal exon the event is marked as alt_end or alt_start
retained_intron	0	1	0	1	0	2
alt3p	0	1	0	1	1	1
alt5p	0	1	0	1	1	1
twin cassette	0	1	0	2	3	0
alt cassette	0	1	0	1	2	0
mutually exclusive	1	2	0	1	2	0
complex	other

The script used is in the edscripts.tgz package