BMC Bioinformatics

Table 1 Accuracy evaluation on simulated data.

From: CLASS: constrained transcript assembly of RNA-seq reads

Set	Exons					Transcripts
	Total	Match_ref	Match_pred	R	P	Total	Match_ref	Match_pred	R	P
ENSEMBL	4401	-	-	-	-	559	-	-	-	-
Paired-end reads
IsoCEM	3070	2231	2230	0.507	0.726	562	284	299	0.508	0.532
Cufflinks	3680	2515	2522	0.571	0.685	738	351	391	0.628	0.530
Scripture	3347	2385	2394	0.542	0.715	954	307	337	0.549	0.353
CLASS	3639	2685	2707	0.610	0.744	748	394	493	0.705	0.659
CLASS0	3639	2685	2707	0.610	0.744	735	389	489	0.696	0.665
Single-end reads
IsoCEM	3114	2242	2247	0.509	0.722	633	292	317	0.522	0.501
Cufflinks	3423	2539	2593	0.577	0.746	666	372	445	0.665	0.668
Scripture	3156	2374	2401	0.539	0.761	658	317	377	0.567	0.573
CLASS	3466	2668	2683	0.606	0.774	635	370	467	0.662	0.735
CLASS0	3466	2668	2683	0.606	0.774	629	373	464	0.667	0.738

Abbreviations: Match_ref = reference transcripts (exons) that match predictions; Match_pred = predicted transcripts (exons) that match the reference; R = recall; P = precision.

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