Table 5:

Metrics and definitions for evaluation against SIRVs.

Reference SIRV (rSIRV)	Ground truth SIRV model
SIRV_transcripts	Transcripts mapping to a SIRV chromosome
SIRV_RM	SIRV_transcripts associated to at True Positive
True Positive detections (TP)	rSIRVs identified as RM
Partial True Positive detections (PTP)	rSIRVs identified as ISM or FSM_non_RM
False Negative (FN)	rSIRVs without FSM or ISM
False Positive (FP)	NIC + NNC + antisense + fusion SIRV_transcripts
Sensitivity	TP/rSIRVs
Precision	RM/SIRV_transcripts
Non_redundant Precision	TP/SIRV_transcripts
Positive Detection Rate	unique(TP+PTP)/rSIRVs
False Discovery Rate	(SIRV_transcripts - SIRV_RM)/SIRV_transcripts
False Detection Rate	FP/SIRV_transcripts
Redundancy	(FSM + ISM)/unique(TP+PTP)