Table 2. The mean number of exons or exonic parts that have an absolute fold change value of at least two for different aligners and different quantification methods.

	Bowtie2-EQP	STAR	Tophat2	SpliceMap
EQP	65 316.19	72 247.31	72 361.78	67 752.12
dexseq-count	62 496.12	62 982.22	60 927.31	65 038.12
QuasR	55 141.88	57 653.25	61 340.56	56 502.50