FSA (version 0.8.17)

bcFuns: Creates a function for a specific back-calculation model.

Description

Creates a function for a specific back-calculation model based on definitions in Vigliola and Meekan (2009).

Usage

bcFuns(BCM, verbose = FALSE)

Arguments

BCM

A single numeric between 1 and 22 or a string that indicates which back-calculation model to use (based on numbers and names in Vigliola and Meekan (2009)).

verbose

A logical that indicates whether a message about the model and parameter definitions should be output.

Value

A function that can be used to predict length at previous age (Li) given length-at-capture (Lc), hard-part radius-at-age i (Ri), and hard-part radius-at-capture (Rc). In addition, some functions/models may require the previous age (agei) and the age-at-capture (agec), certain parameters related to the biological intercept (R0p & L0p), or certain parameters estimated from various regression models (a,b,c,A,B,C). See source for more information.

IFAR Supplement

http://derekogle.com/IFAR/supplements/backcalculation/

Details

The following back-calculation models, based on definitions with abbreviations and model numbers from Vigliola and Meekan (2009), are supported.

Abbreviation	Number	Model
DALE	1	Dahl-Lea
FRALE	2	Fraser-Lee
BI, LBI	3	(Linear) Biological Intercept
BPH, LBPH	4	(Linear) Body Proportional Hypothesis
TVG	5	Time-Varying Growth
SPH, LSPH	6	(Linear) Scale Proportional Hypothesis
AE, AESPH	7	(Age Effect) Scale Proportional Hypothesis
AEBPH	8	(Age Effect) Body Proportional Hypothesis
MONA	9	Monastyrsky
MONA-BPH	10	Monastyrsky Body Proportional Hypothesis
MONA-SPH	11	Monastyrsky Scale Proportional Hypothesis
WAKU	12	Watanabe and Kuroki
FRY	13	Fry
MF, ABI	14	Modified Fry, Allometric Biological Intercept
FRY-BPH, ABPH	15	Fry, Allometric Body Proportional Hypothesis
FRY-SPH, ASPH	16	Fry, Allometric Scale Proportional Hypothesis
QBPH	17	Quadratic Body Proportional Hypothesis
QSPH	18	Quadratic Scale Proportional Hypothesis
PBPH	19	Polynomial Body Proportional Hypothesis
PSPH	20	Polynomial Scale Proportional Hypothesis
EBPH	21	Exponential Body Proportional Hypothesis
ESPH	22	Exponential Scale Proportional Hypothesis

References

Vigliola, L. and M.G. Meekan. 2009. The back-calculation of fish growth from otoliths. pp. 174-211. in B.S. Green et al. (editors). Tropical Fish Otoliths: Information for Assessment, Management and Ecology. Review: Methods and Technologies in Fish Biology and Fisheries 11. Springer. [Was (is?) available from https://www.researchgate.net/publication/226394736_The_Back-Calculation_of_Fish_Growth_From_Otoliths.]

Examples

# NOT RUN {
## Simple Examples
( bcm1 <- bcFuns(1) )
bcm1(20,10,40)

## Example with dummy length-at-cap, radii-at-cap, and radii-at-age
lencap <- c(100,100,100,150,150)
radcap <- c(20,20,20,30,30)
rad    <- c( 5,10,15,15,25)
bcm1(lencap,rad,radcap)

( bcm2 <- bcFuns("FRALE") )
bcm2(lencap,rad,radcap,2)  # demonstrated with a=2

# }