Calculates the predation mortality rate \(\mu_p(w)\) on the resource spectrum by resource size (in units 1/year).
Usage
getResourceMort(
params,
n = initialN(params),
n_pp = initialNResource(params),
n_other = initialNOther(params),
t = 0,
...
)Arguments
- params
A MizerParams object
- n
A matrix of species abundances (species x size).
- n_pp
A vector of the resource abundance by size
- n_other
A list of abundances for other dynamical components of the ecosystem
- t
The time for which to do the calculation (Not used by standard mizer rate functions but useful for extensions with time-dependent parameters.)
- ...
Unused
Your own resource mortality function
By default getResourceMort() calls mizerResourceMort(). However you can
replace this with your own alternative resource mortality function. If
your function is called "myResourceMort" then you register it in a MizerParams
object params with
Your function will then be called instead of mizerResourceMort(), with the
same arguments.
See also
Other rate functions:
getEGrowth(),
getERepro(),
getEReproAndGrowth(),
getEncounter(),
getFMort(),
getFMortGear(),
getFeedingLevel(),
getMort(),
getPredMort(),
getPredRate(),
getRDD(),
getRDI(),
getRates()
Examples
# \donttest{
params <- NS_params
# With constant fishing effort for all gears for 20 time steps
sim <- project(params, t_max = 20, effort = 0.5)
# Get resource mortality at one time step
getResourceMort(params, n = N(sim)[15, , ], n_pp = NResource(sim)[15, ])
#> 2.12e-13 2.53e-13 3.02e-13 3.61e-13 4.3e-13 5.14e-13
#> 1.191600e-05 1.465460e-05 1.798292e-05 2.201903e-05 2.690274e-05 3.279930e-05
#> 6.13e-13 7.31e-13 8.73e-13 1.04e-12 1.24e-12 1.48e-12
#> 3.990356e-05 4.844483e-05 5.869238e-05 7.096180e-05 8.562223e-05 1.031046e-04
#> 1.77e-12 2.11e-12 2.52e-12 3.01e-12 3.59e-12 4.28e-12
#> 1.239110e-04 1.486254e-04 1.779260e-04 2.125986e-04 2.535523e-04 3.018375e-04
#> 5.11e-12 6.1e-12 7.28e-12 8.69e-12 1.04e-11 1.24e-11
#> 3.586655e-04 4.254310e-04 5.037376e-04 5.954260e-04 7.026065e-04 8.276945e-04
#> 1.48e-11 1.76e-11 2.1e-11 2.51e-11 2.99e-11 3.57e-11
#> 9.734509e-04 1.143027e-03 1.340016e-03 1.568506e-03 1.833146e-03 2.139215e-03
#> 4.26e-11 5.09e-11 6.07e-11 7.25e-11 8.65e-11 1.03e-10
#> 2.492696e-03 2.900367e-03 3.369892e-03 3.909929e-03 4.530249e-03 5.241863e-03
#> 1.23e-10 1.47e-10 1.75e-10 2.09e-10 2.5e-10 2.98e-10
#> 6.057169e-03 6.990113e-03 8.056368e-03 9.273534e-03 1.066136e-02 1.224199e-02
#> 3.56e-10 4.25e-10 5.07e-10 6.05e-10 7.21e-10 8.61e-10
#> 1.404025e-02 1.608396e-02 1.840426e-02 2.103607e-02 2.401848e-02 2.739529e-02
#> 1.03e-09 1.23e-09 1.46e-09 1.75e-09 2.08e-09 2.49e-09
#> 3.121561e-02 3.553457e-02 4.041409e-02 4.592387e-02 5.214254e-02 5.915897e-02
#> 2.97e-09 3.54e-09 4.23e-09 5.04e-09 6.02e-09 7.18e-09
#> 6.707381e-02 7.600133e-02 8.607129e-02 9.743112e-02 1.102481e-01 1.247118e-01
#> 8.57e-09 1.02e-08 1.22e-08 1.46e-08 1.74e-08 2.07e-08
#> 1.410363e-01 1.594636e-01 1.802665e-01 2.037529e-01 2.302707e-01 2.602140e-01
#> 2.48e-08 2.95e-08 3.53e-08 4.21e-08 5.02e-08 5.99e-08
#> 2.940298e-01 3.322254e-01 3.753760e-01 4.241321e-01 4.792265e-01 5.414796e-01
#> 7.15e-08 8.53e-08 1.02e-07 1.22e-07 1.45e-07 1.73e-07
#> 6.118044e-01 6.912085e-01 7.807945e-01 8.817570e-01 9.953761e-01 1.123005e+00
#> 2.07e-07 2.46e-07 2.94e-07 3.51e-07 4.19e-07 5e-07
#> 1.266056e+00 1.425971e+00 1.604200e+00 1.802155e+00 2.021173e+00 2.262461e+00
#> 5.96e-07 7.12e-07 8.49e-07 1.01e-06 1.21e-06 1.44e-06
#> 2.527036e+00 2.815672e+00 3.128828e+00 3.466589e+00 3.828609e+00 4.214051e+00
#> 1.72e-06 2.06e-06 2.45e-06 2.93e-06 3.49e-06 4.17e-06
#> 4.621551e+00 5.049193e+00 5.494492e+00 5.954415e+00 6.425412e+00 6.903482e+00
#> 4.98e-06 5.94e-06 7.09e-06 8.46e-06 1.01e-05 1.2e-05
#> 7.384253e+00 7.863102e+00 8.335280e+00 8.796067e+00 9.240932e+00 9.665706e+00
#> 1.44e-05 1.71e-05 2.05e-05 2.44e-05 2.91e-05 3.48e-05
#> 1.006675e+01 1.044112e+01 1.078672e+01 1.110244e+01 1.138819e+01 1.164500e+01
#> 4.15e-05 4.95e-05 5.91e-05 7.05e-05 8.42e-05 1e-04
#> 1.187490e+01 1.208070e+01 1.226570e+01 1.243314e+01 1.258558e+01 1.272433e+01
#> 0.00012 0.000143 0.000171 0.000204 0.000243 0.00029
#> 1.284898e+01 1.295739e+01 1.304607e+01 1.311126e+01 1.315020e+01 1.316268e+01
#> 0.000346 0.000413 0.000493 0.000588 0.000702 0.000838
#> 1.315211e+01 1.312594e+01 1.309514e+01 1.307283e+01 1.307241e+01 1.310551e+01
#> 0.001 0.00119 0.00142 0.0017 0.00203 0.00242
#> 1.317995e+01 1.330042e+01 1.346681e+01 1.367535e+01 1.391969e+01 1.419202e+01
#> 0.00289 0.00345 0.00411 0.00491 0.00586 0.00699
#> 1.448407e+01 1.478786e+01 1.509615e+01 1.540257e+01 1.570168e+01 1.598885e+01
#> 0.00834 0.00995 0.0119 0.0142 0.0169 0.0202
#> 1.626016e+01 1.651232e+01 1.674253e+01 1.694847e+01 1.712823e+01 1.728027e+01
#> 0.0241 0.0288 0.0343 0.0409 0.0489 0.0583
#> 1.740341e+01 1.749673e+01 1.755959e+01 1.759152e+01 1.759215e+01 1.756122e+01
#> 0.0696 0.083 0.0991 0.118 0.141 0.168
#> 1.749844e+01 1.740347e+01 1.727591e+01 1.711521e+01 1.692075e+01 1.669182e+01
#> 0.201 0.24 0.286 0.342 0.408 0.486
#> 1.642767e+01 1.612762e+01 1.579110e+01 1.541784e+01 1.500795e+01 1.456207e+01
#> 0.58 0.693 0.827 0.987 1.18 1.4
#> 1.408146e+01 1.356818e+01 1.302509e+01 1.245594e+01 1.186536e+01 1.125883e+01
#> 1.68 2 2.39 2.85 3.4 4.06
#> 1.064257e+01 1.002339e+01 9.408524e+00 8.805382e+00 8.221287e+00 7.663203e+00
#> 4.84 5.78 6.9 8.23 9.82 11.7
#> 7.137449e+00 6.649430e+00 6.203383e+00 5.802174e+00 5.447164e+00 5.138144e+00
#> 14 16.7 19.9 23.8 28.4 33.8
#> 4.873209e+00 4.648827e+00 4.458701e+00 4.293528e+00 4.147438e+00 4.025062e+00
#> 40.4 48.2 57.5 68.7 81.9 97.8
#> 3.923228e+00 3.833172e+00 3.745724e+00 3.652449e+00 3.546606e+00 3.423801e+00
#> 117 139 166 198 237 282
#> 3.281837e+00 3.119213e+00 2.937145e+00 2.737836e+00 2.524583e+00 2.301380e+00
#> 337 402 480 573 683 816
#> 2.072726e+00 1.843382e+00 1.618080e+00 1.401232e+00 1.196692e+00 1.007558e+00
#> 973 1160 1390 1650 1970 2360
#> 8.360481e-01 6.835105e-01 5.504124e-01 4.364156e-01 3.406147e-01 2.616301e-01
#> 2810 3350 4000 4780 5700 6800
#> 1.977202e-01 1.469509e-01 1.073462e-01 7.700117e-02 5.416234e-02 3.728088e-02
#> 8120 9690 11600 13800 16500 19600
#> 2.503301e-02 1.632133e-02 1.026069e-02 6.153628e-03 3.461409e-03 1.775429e-03
#> 23400 28000 33400 39900
#> 7.899871e-04 2.759636e-04 5.803739e-05 3.902282e-16
# }