Description :
AllCurves() runs multiple lactation curve models and extracts selection
criteria for each model. This package summarises the most common
lactation curve models from the last century and provides a tool for
researchers to quickly decide on which model fits their data best to
proceed with their analysis. Start parameters were optimized based on a
dataset with 1.7 million Holstein-Friesian cows. If convergence fails,
the start parameters need to be manually adjusted. The models included
in the package are taken from: (1) Michaelis-Menten: Michaelis, L. and
M.L. Menten (1913).
< www.plantphys.info/plant_physiology/copyright/MichaelisMentenTranslation2.pdf>
(1a) Michaelis-Menten (Rook): Rook, A.J., J. France, and M.S. Dhanoa
(1993). < doi:10.1017/S002185960007684X> (1b) Michaelis-Menten +
exponential (Rook): Rook, A.J., J. France, and M.S. Dhanoa (1993).
< doi:10.1017/S002185960007684X> (2) Brody (1923): Brody, S., A.C.
Ragsdale, and C.W. Turner (1923). < doi:10.1085/jgp.5.6.777> (3) Brody
(1924): Brody, S., C.W. Tuner, and A.C. Ragsdale (1924).
< https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2140670/> (4) Schumacher:
Schumacher, F.X. (1939) in Thornley, J.H.M. and J. France (2007).
< https://books.google.com.au/books/about/Mathematical_Models_in_Agriculture.html?id=rlwBCRSHobcC&redir_esc=y>
(4a) Schumacher (Lopez et al. 2015): Lopez, S. J. France, N.E. Odongo,
R.A. McBride, E. Kebreab, O. AlZahal, B.W. McBride, and J. Dijkstra
(2015). < doi:10.3168/jds.2014-8132> (5) Parabolic exponential
(Adediran): Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and A.E.O.
Malau-Aduli (2012). < doi:10.3168/jds.2011-4663> (6) Wood: Wood, P.D.P.
(1967). < doi:10.1038/216164a0> (6a) Wood reparameterized (Dhanoa):
Dhanoa, M.S. (1981). < doi:10.1017/S0003356100027276> (6b) Wood
non-linear (Cappio-Borlino): Cappio-Borlino, A., G. Pulina, and G.
Rossi (1995). < doi:10.1016/0921-4488(95)00713-U> (7) Quadratic
Polynomial (Dave): Dave, B.K. (1971) in Adediran, S.A., D.A. Ratkowsky,
D.J. Donaghy, and A.E.O. Malau-Aduli (2012).
< doi:10.3168/jds.2011-4663> (8) Cobby and Le Du (Vargas): Vargas, B.,
W.J. Koops, M. Herrero, and J.A.M Van Arendonk (2000).
< doi:10.3168/jds.S0022-0302(00)75005-3> (9) Papajcsik and Bodero 1:
Papajcsik, I.A. and J. Bodero (1988). < doi:10.1017/S0003356100003275>
(10) Papajcsik and Bodero 2: Papajcsik, I.A. and J. Bodero (1988).
< doi:10.1017/S0003356100003275> (11) Papajcsik and Bodero 3: Papajcsik,
I.A. and J. Bodero (1988). < doi:10.1017/S0003356100003275> (12)
Papajcsik and Bodero 4: Papajcsik, I.A. and J. Bodero (1988).
< doi:10.1017/S0003356100003275> (13) Papajcsik and Bodero 6: Papajcsik,
I.A. and J. Bodero (1988). < doi:10.1017/S0003356100003275> (14) Mixed
log model 1 (Guo and Swalve): Guo, Z. and H.H. Swalve (1995).
< https://journal.interbull.org/index.php/ib/issue/view/11> (15) Mixed
log model 3 (Guo and Swalve): Guo, Z. and H.H. Swalve (1995).
< https://journal.interbull.org/index.php/ib/issue/view/11> (16)
Log-quadratic (Adediran et al. 2012): Adediran, S.A., D.A. Ratkowsky,
D.J. Donaghy, and A.E.O. Malau-Aduli (2012).
< doi:10.3168/jds.2011-4663> (17) Wilmink: J.B.M. Wilmink (1987).
< doi:10.1016/0301-6226(87)90003-0> (17a) modified Wilmink (Jakobsen):
Jakobsen J.H., P. Madsen, J. Jensen, J. Pedersen, L.G. Christensen, and
D.A. Sorensen (2002). < doi:10.3168/jds.S0022-0302(02)74231-8> (17b)
modified Wilmink (Laurenson & Strucken): Strucken E.M., Brockmann G.A.,
and Y.C.S.M. Laurenson (2019).
< http://www.aaabg.org/aaabghome/AAABG23papers/35Strucken23139.pdf> (18)
Bicompartemental (Ferguson and Boston 1993): Ferguson, J.D., and R.
Boston (1993) in Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and
A.E.O. Malau-Aduli (2012). < doi:10.3168/jds.2011-4663> (19) Dijkstra:
Dijkstra, J., J. France, M.S. Dhanoa, J.A. Maas, M.D. Hanigan, A.J.
Rook, and D.E. Beever (1997). < doi:10.3168/jds.S0022-0302(97)76185-X>
(20) Morant and Gnanasakthy (Pollott et al 2000): Pollott, G.E. and E.
Gootwine (2000). < doi:10.1017/S1357729800055028> (21) Morant and
Gnanasakthy (Vargas et al 2000): Vargas, B., W.J. Koops, M. Herrero,
and J.A.M Van Arendonk (2000). < doi:10.3168/jds.S0022-0302(00)75005-3>
(22) Morant and Gnanasakthy (Adediran et al. 2012): Adediran, S.A.,
D.A. Ratkowsky, D.J. Donaghy, and A.E.O. Malau-Aduli (2012).
< doi:10.3168/jds.2011-4663> (23) Khandekar (Guo and Swalve): Guo, Z.
and H.H. Swalve (1995).
< https://journal.interbull.org/index.php/ib/issue/view/11> (24) Ali and
Schaeffer: Ali, T.E. and L.R. Schaeffer (1987).
< https://cdnsciencepub.com/doi/pdf/10.4141/cjas87-067> (25) Fractional
Polynomial (Elvira et al. 2013): Elvira, L., F. Hernandez, P. Cuesta,
S. Cano, J.-V. Gonzalez-Martin, and S. Astiz (2012).
< doi:10.1017/S175173111200239X> (26) Pollott multiplicative (Elvira):
Elvira, L., F. Hernandez, P. Cuesta, S. Cano, J.-V. Gonzalez-Martin,
and S. Astiz (2012). < doi:10.1017/S175173111200239X> (27) Pollott
modified: Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and A.E.O.
Malau-Aduli (2012). < doi:10.3168/jds.2011-4663> (28) Monophasic
Grossman: Grossman, M. and W.J. Koops (1988).
< doi:10.3168/jds.S0022-0302(88)79723-4> (29) Monophasic Power
Transformed (Grossman 1999): Grossman, M., S.M. Hartz, and W.J. Koops
(1999). < doi:10.3168/jds.S0022-0302(99)75464-0> (30) Diphasic (Grossman
1999): Grossman, M., S.M. Hartz, and W.J. Koops (1999).
< doi:10.3168/jds.S0022-0302(99)75464-0> (31) Diphasic Power Transformed
(Grossman 1999): Grossman, M., S.M. Hartz, and W.J. Koops (1999).
< doi:10.3168/jds.S0022-0302(99)75464-0> (32) Legendre Polynomial (3th
order): Jakobsen J.H., P. Madsen, J. Jensen, J. Pedersen, L.G.
Christensen, and D.A. Sorensen (2002).
< doi:10.3168/jds.S0022-0302(02)74231-8> (33) Legendre Polynomial (4th
order): Jakobsen J.H., P. Madsen, J. Jensen, J. Pedersen, L.G.
Christensen, and D.A. Sorensen (2002).
< doi:10.3168/jds.S0022-0302(02)74231-8> (34) Legendre + Wilmink
(Lidauer): Lidauer, M. and E.A. Mantysaari (1999).
< https://journal.interbull.org/index.php/ib/article/view/417> (35)
Natural Cubic Spline (3 percentiles): White, I.M.S., R. Thompson, and
S. Brotherstone (1999). < doi:10.3168/jds.S0022-0302(99)75277-X> (36)
Natural Cubic Spline (4 percentiles): White, I.M.S., R. Thompson, and
S. Brotherstone (1999). < doi:10.3168/jds.S0022-0302(99)75277-X> (37)
Natural Cubic Spline (5 percentiles): White, I.M.S., R. Thompson, and
S. Brotherstone (1999) < doi:10.3168/jds.S0022-0302(99)75277-X> (38)
Natural Cubic Spline (defined knots according to Harrell 2001): Jr.
Harrell, F.E. (2001).
< https://link.springer.com/book/10.1007/978-3-319-19425-7> The
selection criteria measure the goodness of fit of the model and
include: Residual standard error (RSE), R-square (R2), log likelihood,
Akaike information criterion (AIC), Akaike information criterion
corrected (AICC), Bayesian Information Criterion (BIC), Durbin Watson
coefficient (DW). The following model parameters are included: Residual
sum of squares (RSS), Residual standard deviation (RSD), F-value (F)
based on F-ratio test.
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