1 Data Check Criteria

These are the current default values. Users can specify alternative settings.

The checkSRData() function calculates data quality metrics for a SR data set, looking at the entire time series and at individual observations. Potential data concerns are flagged if metric values fall below, above, or outside the range of user-specified trigger values. For example, low contrast in spawner data (Contr) is flagged if Max(Spn)/Min(Spn) < 4, using the threshold from Clark et al. (2014). Individual spawner observations (OddSpn) are flagged if they are an order of magnitude different from the median (i.e. less than 10%, or more than 10 times bigger).

NOTE: age comp diagnostics in the data check are not behaving properly. See this issue for details.

Active Criteria

Label	Criterion	Scope	Vars	Metric	Calc	Trigger
Contr	Low contrast in Spn Data	Series	S	Contrast in Spn	max(spn)/min(spn)	<4
NumObs	Insufficient SR data	Series	S,R	Num brood years with data	num(BY)	<10
LgSpn	Missing large Spn	Series	S,R	Large obs Spn not in SR data	Max(spn)/(Max(spn in SR) and min	>2
LgRec	Missing large Rec	Series	S,R	Large obs Rec not in SR data	Max(rec)/(Max(rec in SR) andmin	>2
SmSpn	Missing small Spn	Series	S,R	Small obs Spn not in SR data	Max(spn)/(Max(spn in SR) and min	>2
SmRec	Missing small Rec	Series	S,R	Small obs Rec not in SR data	Max(rec)/(Max(rec in SR) andmin	>2
LgExp	Large Spn Exp	Series	SpnExp	total expansion	Median(ExpSpn)	>3
OddSpn	Unusual Spn obs	Obs	S	Obs vs. Med	Spn / Med(Spn)	<0.1 or >10
OddRec	Unusual Rec obs	Obs	R	Obs vs. Med	Rec / Med(Rec)	<0.1 or >10
OddProd	Unusual productivity	Obs	S,R	Recruits/Spawner	RpS	<0.3 or >15
OddExp	Unusual Spn Exp obs	Obs	SpnExp	Obs vs Med	ExpSpn/Median(ExpSpn)	<0.2 or >5

Under Review

Label	Criterion	Scope	Vars	Metric	Calc	Trigger
VarAge	Unstable age comp	Series	age	range in BY age comp	MaxDiffByAge	>20%
OddAge	Unusual age comp obs	Obs	age	Obs vs. Med for Main Age	PercAge/(MedPercAge)	<0.8 or >1.2