sp.file: Species File
In akeyel/spatialdemography: A Spatially Explicit Metacommunity Model

Description Details

Input file giving the vital rates and response traits for each species. Either this file OR both the Species Instructions File sp.instr.file and the Species Response Instructions file sp.resp.instr.file are required.

Input	Description
sp	A numeric indicator for species
p01	Transition rate from stage 0 to stage 1.
p02	Transition rate from stage 0 to stage 2.
p11	Survival rate of stage 1 (proportion of stage 1 individuals that remains in stage 1).
p12	Transition rate from stage 1 to stage 2.
p22	Survival rate of stage 2 (proportion of stage 2 individuals that remains in stage 2).
p23	Transition rate from stage 2 to stage 3.
p30	Number of stage 0 individuals produced by stage 3.
p32	Number of stage 2 individuals produced by stage 3.
p33	Survival rate of stage 3 (proportion of stage 3 individuals that remain in stage 3).
biomass.adult	The species' adult biomass (g).
biomass.juv	The species juvenile biomass (g), only needed if assigning initial numbers by biomass.
biomass.seed	The species' seed mass (g), only needed if assigning initial numbers by biomass.
dispersalfunction	A number indicating which dispersal function to use. Log-normal is indi-cated by 1.
disppar1	The first input parameter for the dispersal function. For log-normal, this is the mean dispersal distance, in cells (not log transformed).
disppar2	The second input parameter for the dispersal function. For log-normal, this is the dispersal standard deviation in cells (log-transformed).
<Response Traits>	Zero or more response traits describing how the species will respond to environmental layers. Each entry is delimited by ';', and has four components: the 'optimal' value, a code for the function for how the vital rate will change relative to the optimal value, and two parameters for the function.