stanTPC: Thermal performance curves in Stan

stanTPC provides a Stan translation of rTPC for functions for fitting thermal performance curves to data.

How to use

Make functions available to your Stan code

Copy the file tpc-models.stanfunctions to the directory containing the .stan file that will fit a thermal performance curve. In the functions block, insert the following:

functions {
  ...
  #include tpc-models.stanfunctions
  ...
}

Add parameters to the model block

You will need to add the parameters of the model you want to use to the model block. The models are:

Model	Parameters	Negative low	Negative high
analytiskontodimas_2004	a, tmin, tmax	no	no
ashrafi1_2018	a, b, c	yes	no
ashrafi2_2018	a, b, c	yes	yes
ashrafi3_2018	a, b, c	no	no
ashrafi4_2018	a, b, c, d	yes	yes
ashrafi5_2018	a, b, c, d	yes	yes
atkin_2005	r0, a, b	no	no
beta_2012	a, b, c, d, e	no	no
betatypesimplified_2008	rho, alpha, beta	no	yes
boatman_2017	rmax, tmin, tmax, a, b	no	no
briere1_1999	tmin, tmax, a	no	no
briere1simplified_1999	tmin, tmax, a	yes	no
briere2_1999	tmin, tmax, a, b	yes	no
briere2simplified_1999	tmin, tmax, a, b	yes	no
briereextended_2021	tmin, tmax, a, b, d	no	no
briereextendedsimplified_2021	tmin, tmax, a, b, d	no	no
delong_2017	c, eb, ef, tm, ehc	no	no
deutsch_2008	rmax, topt, ctmax, a	no	yes
eubank_1973	topt, a, b	no	no
flextpc_2024	tmin, tmax, rmax, alpha, beta	no	no
flinn_1991	a, b, c	no	no
gaussian_1987	rmax, topt, a	no	no
gaussianmodified_2006	rmax, topt, a, b	no	no
hinshelwood_1947	a, e, b, eh	no	yes
janisch1_1925	m, a, topt	no	no
janisch2_1925	m, a, b, topt	no	no
joehnk_2008	rmax, topt, a, b, c	yes	yes
johnsonlewin_1946	r0, e, eh, topt	no	no
kamykowski_1985	tmin, tmax, a, b, c	yes	yes
lactin2_1995	a, b, tmax, delta_t	yes	yes
lobry_1991	rmax, topt, tmin, tmax	no	no
mitchell_2009	topt, a, b	no	no
oneill_1972	rmax, ctmax, topt, q10	no	no
pawar_2018	r_tref, e, eh, topt, tref	no	no
quadratic_2008	a, b, c	yes	yes
ratkowsky_1983	tmin, tmax, a, b	no	no
rezende_2019	q10, a, b, c	no	yes
rosso_1993	rmax, topt, tmin, tmax	no	yes
sharpeschoolfull_1981	r_tref, e, el, tl, eh, th, tref	no	no
sharpeschoolhigh_1981	r_tref, e, eh, th, tref	no	no
sharpeschoollow_1981	r_tref, e, el, tl, tref	no	no
spain_1982	a, b, c, r0	no	yes
stinner_1974	rmax, topt, a, b	no	no
taylorsexton_1972	rmax, tmin, topt	no	yes
thomas_2012	a, b, c, tref	yes	yes
thomas_2017	a, b, c, d, e	yes	yes
tomlinsonphillips_2015	a, b, c	no	yes
warrendreyer_2006	rmax, topt, a	no	no
weibull_1995	a, topt, b, c	no	no

Contributing

Please consider opening an issue to add new thermal performance curve models, both here and for rTPC.

Citation

If you use these functions, please cite the authors of the rTPC package:

Padfield D, O’Sullivan H, Windram F (2024). rTPC: Fitting and Analysing Thermal Performance Curves. R package version 1.0.7, https://padpadpadpad.github.io/rTPC/, https://github.com/padpadpadpad/rTPC