Calculates the energy rate \(g_i(w)\) (grams/year) available by species and size for growth after metabolism, movement and reproduction have been accounted for.
Usage
getEGrowth(
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 growth rate function
By default getEGrowth() calls mizerEGrowth(). However you can
replace this with your own alternative growth rate function. If
your function is called "myEGrowth" then you register it in a MizerParams
object params with
Your function will then be called instead of mizerEGrowth(), with the
same arguments.
See also
getERepro(), getEReproAndGrowth()
Other rate functions:
getERepro(),
getEReproAndGrowth(),
getEncounter(),
getFMort(),
getFMortGear(),
getFeedingLevel(),
getMort(),
getPredMort(),
getPredRate(),
getRDD(),
getRDI(),
getRates(),
getResourceMort()
Examples
# \donttest{
params <- NS_params
# Project with constant fishing effort for all gears for 20 time steps
sim <- project(params, t_max = 20, effort = 0.5)
# Get the energy at a particular time step
getEGrowth(params, n = N(sim)[15, , ], n_pp = NResource(sim)[15, ], t = 15)
#> w
#> sp 0.001 0.00119 0.00142 0.0017 0.00203 0.00242
#> Sprat 0.03898727 0.04367083 0.04891468 0.05478551 0.06135789 0.06871518
#> Sandeel 0.05897984 0.06606582 0.07399970 0.08288246 0.09282702 0.10395968
#> N.pout 0.06841484 0.07646616 0.08544993 0.09547148 0.10664750 0.11910708
#> Herring 0.07499078 0.08403287 0.09415554 0.10548733 0.11817199 0.13237024
#> Dab 0.06509621 0.07284200 0.08149917 0.09117329 0.10198187 0.11405572
#> Whiting 0.05945713 0.06645437 0.07426208 0.08297184 0.09268514 0.10351431
#> Sole 0.04802253 0.05375077 0.06015549 0.06731545 0.07531841 0.08426210
#> Gurnard 0.04119965 0.04610888 0.05159689 0.05773090 0.06458577 0.07224488
#> Plaice 0.03093383 0.03460552 0.03870761 0.04328972 0.04840702 0.05412089
#> Haddock 0.07837947 0.08773978 0.09820772 0.10991264 0.12299874 0.13762670
#> Cod 0.12952994 0.14485889 0.16197732 0.18109037 0.20242607 0.22623782
#> Saithe 0.10428505 0.11659036 0.13032665 0.14565706 0.16276279 0.18184491
#> w
#> sp 0.00289 0.00345 0.00411 0.00491 0.00586 0.00699
#> Sprat 0.07695057 0.08616823 0.09648458 0.10802968 0.12094886 0.1354044
#> Sandeel 0.11642166 0.13037086 0.14598380 0.16345784 0.18301354 0.2048974
#> N.pout 0.13299295 0.14846267 0.16569002 0.18486638 0.20620222 0.2299287
#> Herring 0.14826178 0.16604751 0.18595202 0.20822628 0.23315080 0.2610390
#> Dab 0.12754035 0.14259758 0.15940732 0.17816944 0.19910597 0.2224634
#> Whiting 0.11558355 0.12903008 0.14400528 0.16067598 0.17922585 0.1998568
#> Sole 0.09425537 0.10541938 0.11788892 0.13181398 0.14736128 0.1647162
#> Gurnard 0.08080100 0.09035738 0.10102886 0.11294309 0.12624195 0.1410830
#> Plaice 0.06049958 0.06761890 0.07556309 0.08442565 0.09431032 0.1053322
#> Haddock 0.15397550 0.17224449 0.19265558 0.21545575 0.24091976 0.2693532
#> Cod 0.25280702 0.28244601 0.31550124 0.35235673 0.39343778 0.4392150
#> Saithe 0.20312644 0.22685451 0.25330272 0.28277357 0.31560107 0.3521534
#> w
#> sp 0.00834 0.00995 0.0119 0.0142 0.0169 0.0202 0.0241
#> Sprat 0.1515776 0.1696707 0.1899097 0.2125465 0.2378621 0.2661702 0.2978202
#> Sandeel 0.2293850 0.2567840 0.2874384 0.3217324 0.3600949 0.4030051 0.4509980
#> N.pout 0.2562993 0.2855918 0.3181097 0.3541851 0.3941803 0.4384907 0.4875480
#> Herring 0.2922411 0.3271483 0.3661975 0.4098768 0.4587309 0.5133683 0.5744680
#> Dab 0.2485152 0.2775646 0.3099477 0.3460371 0.3862449 0.4310272 0.4808884
#> Whiting 0.2227904 0.2482700 0.2765620 0.3079582 0.3427782 0.3813715 0.4241213
#> Sole 0.1840845 0.2056949 0.2298011 0.2566846 0.2866574 0.3200651 0.3572904
#> Gurnard 0.1576413 0.1761109 0.1967070 0.2196683 0.2452588 0.2737707 0.3055273
#> Plaice 0.1176187 0.1313112 0.1465659 0.1635558 0.1824719 0.2035256 0.2269498
#> Haddock 0.3010956 0.3365245 0.3760589 0.4201642 0.4693565 0.5242082 0.5853535
#> Cod 0.4902084 0.5469924 0.6102000 0.6805286 0.7587446 0.8456898 0.9422866
#> Saithe 0.3928356 0.4380922 0.4884100 0.5443205 0.6064023 0.6752831 0.7516423
#> w
#> sp 0.0288 0.0343 0.0409 0.0489 0.0583 0.0696 0.083
#> Sprat 0.3332015 0.3727480 0.4169429 0.4663241 0.5214902 0.5831073 0.6519158
#> Sandeel 0.5046707 0.5646897 0.6317989 0.7068280 0.7907026 0.8844550 0.9892361
#> N.pout 0.5418236 0.6018333 0.6681421 0.7413722 0.8222104 0.9114205 1.0098566
#> Herring 0.6427879 0.7191736 0.8045688 0.9000257 1.0067182 1.1259548 1.2591945
#> Dab 0.5363862 0.5981364 0.6668190 0.7431849 0.8280627 0.9223669 1.0271070
#> Whiting 0.4714476 0.5238121 0.5817234 0.6457444 0.7165006 0.7946916 0.8811047
#> Sole 0.3987567 0.4449321 0.4963335 0.5535316 0.6171557 0.6878992 0.7665254
#> Gurnard 0.3408852 0.3802384 0.4240209 0.4727106 0.5268334 0.5869669 0.6537454
#> Plaice 0.2530019 0.2819655 0.3141536 0.3499114 0.3896198 0.4336995 0.4826158
#> Haddock 0.6534948 0.7294096 0.8139575 0.9080886 1.0128523 1.1294063 1.2590273
#> Cod 1.0495451 1.1685693 1.3005652 1.4468493 1.6088582 1.7881612 1.9864747
#> Saithe 0.8362121 0.9297800 1.0331897 1.1473433 1.2732031 1.4117937 1.5642051
#> w
#> sp 0.0991 0.118 0.141 0.168 0.201 0.24 0.286
#> Sprat 0.7287391 0.8144924 0.9101923 1.0169682 1.1360739 1.2689017 1.416997
#> Sandeel 1.1063284 1.2371616 1.3833281 1.5466015 1.7289565 1.9325912 2.159951
#> N.pout 1.1184820 1.2383921 1.3708437 1.5172913 1.6794330 1.8592653 2.059150
#> Herring 1.4080629 1.5743717 1.7601388 1.9676117 2.1992923 2.4579658 2.746731
#> Dab 1.1433981 1.2724724 1.4156935 1.5745722 1.7507864 1.9462034 2.162908
#> Whiting 0.9766328 1.0822968 1.1992724 1.3289253 1.4728523 1.6329325 1.811388
#> Sole 0.8538743 0.9508690 1.0585237 1.1779518 1.3103753 1.4571352 1.619703
#> Gurnard 0.7278639 0.8100839 0.9012389 1.0022401 1.1140835 1.2378574 1.374751
#> Plaice 0.5368840 0.5970766 0.6638317 0.7378628 0.8199721 0.9110658 1.012173
#> Haddock 1.4031220 1.5632390 1.7410824 1.9385260 2.1576288 2.4006533 2.670084
#> Cod 2.2056806 2.4478502 2.7152741 3.0105016 3.3363907 3.6961732 4.093537
#> Saithe 1.7315967 1.9152023 2.1163381 2.3364124 2.5769398 2.8395603 3.126065
#> w
#> sp 0.342 0.408 0.486 0.58 0.693 0.827 0.987
#> Sprat 1.582073 1.766031 1.970981 2.199257 2.453449 2.736420 3.051342
#> Sandeel 2.413757 2.697034 3.013145 3.365825 3.759226 4.197955 4.687126
#> N.pout 2.281896 2.530852 2.810018 3.124175 3.479032 3.881395 4.339360
#> Herring 3.069035 3.428711 3.830022 4.277702 4.777012 5.333796 5.954537
#> Dab 2.403235 2.669810 2.965600 3.293971 3.658761 4.064371 4.515870
#> Whiting 2.010859 2.234486 2.486012 2.769904 3.091479 3.457070 3.874197
#> Sole 1.799694 1.998882 2.219219 2.462856 2.732167 3.029779 3.358614
#> Gurnard 1.526066 1.693224 1.877787 2.081472 2.306169 2.553975 2.827221
#> Plaice 1.124472 1.249316 1.388272 1.543163 1.716123 1.909656 2.126717
#> Haddock 2.968651 3.299352 3.665485 4.070678 4.518931 5.014661 5.562762
#> Cod 4.532734 5.018707 5.557262 6.155266 6.820901 7.563962 8.396211
#> Saithe 3.438430 3.778862 4.149857 4.554277 4.995449 5.477281 6.004421
#> w
#> sp 1.18 1.4 1.68 2 2.39 2.85 3.4
#> Sprat 3.401719 3.791421 4.224723 4.706336 5.241454 5.835794 6.495645
#> Sandeel 5.232406 5.840052 6.516790 7.268641 8.092443 8.919734 9.330494
#> N.pout 4.862530 5.462269 6.151986 6.947467 7.867265 8.933162 10.170754
#> Herring 6.646432 7.417462 8.276477 9.233282 10.298741 11.484879 12.805006
#> Dab 5.019128 5.580971 6.209374 6.913688 7.704908 8.596008 9.602327
#> Whiting 4.351780 4.900373 5.532445 6.262706 7.108492 8.090226 9.232024
#> Sole 3.721930 4.123379 4.567073 5.057674 5.600493 6.201623 6.868092
#> Gurnard 3.128517 3.460802 3.827415 4.232172 4.679472 5.174425 5.723016
#> Plaice 2.370792 2.646007 2.957241 3.310262 3.711880 4.170120 4.694416
#> Haddock 6.168669 6.838450 7.578906 8.397704 9.303542 10.306353 11.417565
#> Cod 9.331805 10.387781 11.584620 12.946892 14.503982 16.290914 18.349289
#> Saithe 6.582440 7.218059 7.919421 8.696416 9.561062 10.527960 11.614819
#> w
#> sp 4.06 4.84 5.78 6.9 8.23 9.82 11.7
#> Sprat 7.227903 8.040030 8.939416 9.928697 10.973594 11.801057 11.097103
#> Sandeel 8.334053 6.938232 6.561657 6.626575 6.738552 6.779473 6.699245
#> N.pout 11.610442 13.289187 15.251768 17.547976 20.235387 23.380764 27.053777
#> Herring 14.273845 15.907672 17.724477 19.744126 21.988553 24.481961 27.251048
#> Dab 10.742103 12.037227 13.514007 15.203128 17.140680 19.368050 21.923336
#> Whiting 10.562772 12.118127 13.941801 16.081715 18.593290 21.542025 25.004617
#> Sole 7.608075 8.431157 9.348654 10.373851 11.522484 12.813306 14.268745
#> Gurnard 6.332308 7.010722 7.768357 8.617253 9.571873 10.649687 11.871813
#> Plaice 5.295853 5.987481 6.784630 7.705028 8.769269 10.001327 11.429084
#> Haddock 12.650450 14.020631 15.546641 17.250205 19.157160 21.298523 23.711633
#> Cod 20.728409 23.486733 26.693459 30.429464 34.789596 39.885298 45.847462
#> Saithe 12.843101 14.238791 15.833329 17.664581 19.778194 22.229234 25.084143
#> w
#> sp 14 16.7 19.9 23.8 28.4 33.8
#> Sprat 7.453033 4.424125 3.098257 2.179364 1.131725 0.0000000
#> Sandeel 6.456526 6.005034 5.289494 4.243356 2.786609 0.8233617
#> N.pout 31.222146 35.538734 37.416250 31.293118 23.567638 20.9506505
#> Herring 30.325221 33.736946 37.521959 41.719593 46.373127 51.5299497
#> Dab 24.768959 27.399876 27.635029 25.009091 24.481414 25.9678010
#> Whiting 29.030358 33.755452 39.287825 45.716680 53.155718 61.7379728
#> Sole 15.913968 17.782405 19.912229 22.347105 25.139178 28.3498212
#> Gurnard 13.262025 14.851581 16.673332 18.743191 20.930987 22.3203056
#> Plaice 13.082894 15.002008 17.229402 19.811980 22.804192 26.2691823
#> Haddock 26.438084 29.533959 33.063966 37.105199 41.751123 47.1135157
#> Cod 52.823809 60.998273 70.579572 81.804126 94.947068 110.3261129
#> Saithe 28.416030 32.322002 36.913622 42.322965 48.706438 56.2470153
#> w
#> sp 40.4 48.2 57.5 68.7 81.9 97.8
#> Sprat 0.00000 0.00000 0.00000 0.00000 0.000000 0.000000
#> Sandeel 0.00000 0.00000 0.00000 0.00000 0.000000 0.000000
#> N.pout 20.18792 19.22679 17.32401 14.01599 8.826783 1.187192
#> Herring 57.24032 63.54649 70.40517 77.17149 79.788579 66.400342
#> Dab 28.07995 30.34005 32.57979 34.67024 36.455710 37.731582
#> Whiting 71.56904 82.58367 93.57213 98.18398 90.600575 87.250597
#> Sole 32.04343 36.23738 40.56660 42.70243 38.637507 34.718770
#> Gurnard 21.05530 19.61028 20.26202 21.86243 23.760676 25.764763
#> Plaice 30.27860 34.91181 40.24742 46.27421 52.346863 55.307077
#> Haddock 53.32140 60.52712 68.91875 78.71361 90.154419 103.445540
#> Cod 128.30022 149.27370 173.70821 202.11214 235.044504 273.120801
#> Saithe 65.15314 75.66282 88.04840 102.61560 119.706084 139.702553
#> w
#> sp 117 139 166 198 237 282
#> Sprat 0.00000 0.00000 0.00000 0.00000 0.00000 0.000000
#> Sandeel 0.00000 0.00000 0.00000 0.00000 0.00000 0.000000
#> N.pout 0.00000 0.00000 0.00000 0.00000 0.00000 0.000000
#> Herring 43.81969 32.81146 27.85641 23.33841 17.52383 9.725926
#> Dab 38.23245 37.59740 35.34707 30.88285 23.46658 12.179243
#> Whiting 91.99602 99.42457 107.22432 114.55659 120.94959 125.931126
#> Sole 35.20473 37.39969 39.90644 42.25836 44.18072 45.379875
#> Gurnard 27.78530 29.72661 31.45162 32.77447 33.45147 33.161849
#> Plaice 53.32492 54.21913 58.82626 64.81500 71.33614 78.117396
#> Haddock 118.27518 131.07856 131.67387 127.75165 135.10128 148.984149
#> Cod 317.03203 367.51327 425.31332 491.24476 566.22497 651.270131
#> Saithe 163.04253 190.21242 221.73271 258.18138 300.22090 348.597680
#> w
#> sp 337 402 480 573 683 816
#> Sprat 0.00000 0.00000 0.00000 0.00000 0.00000 0.000000
#> Sandeel 0.00000 0.00000 0.00000 0.00000 0.00000 0.000000
#> N.pout 0.00000 0.00000 0.00000 0.00000 0.00000 0.000000
#> Herring 0.00000 0.00000 0.00000 0.00000 0.00000 0.000000
#> Dab 0.00000 0.00000 0.00000 0.00000 0.00000 0.000000
#> Whiting 128.93034 129.23285 125.94663 117.96888 103.95098 82.256841
#> Sole 45.48170 44.00000 40.30805 33.60704 22.88946 6.895993
#> Gurnard 31.48835 27.89479 21.70010 12.04831 0.00000 0.000000
#> Plaice 84.98928 91.76426 98.20200 103.99142 108.73462 111.928576
#> Haddock 165.39885 183.14186 201.71137 220.64539 239.34729 257.016420
#> Cod 747.50449 856.17324 978.65677 1116.48279 1271.31431 1444.757554
#> Saithe 404.14762 467.79489 540.53016 623.27192 715.93948 811.522685
#> w
#> sp 973 1160 1390 1650 1970 2360
#> Sprat 0.00000 0.000000 0.0000 0.00000 0.00000 0.0000
#> Sandeel 0.00000 0.000000 0.0000 0.00000 0.00000 0.0000
#> N.pout 0.00000 0.000000 0.0000 0.00000 0.00000 0.0000
#> Herring 0.00000 0.000000 0.0000 0.00000 0.00000 0.0000
#> Dab 0.00000 0.000000 0.0000 0.00000 0.00000 0.0000
#> Whiting 50.91209 7.546454 0.0000 0.00000 0.00000 0.0000
#> Sole 0.00000 0.000000 0.0000 0.00000 0.00000 0.0000
#> Gurnard 0.00000 0.000000 0.0000 0.00000 0.00000 0.0000
#> Plaice 112.94329 110.995856 105.1198 94.12886 76.57458 50.6965
#> Haddock 272.59384 284.703986 291.5855 291.01013 280.18558 255.6396
#> Cod 1636.91676 1836.752084 1974.4133 1903.81913 1806.51987 1867.9509
#> Saithe 871.87162 853.971385 859.8834 922.93544 1007.07609 1096.9705
#> w
#> sp 2810 3350 4000 4780 5700 6800 8120
#> Sprat 0.00000 0.0000 0.00000 0.000 0.000 0.000 0.000
#> Sandeel 0.00000 0.0000 0.00000 0.000 0.000 0.000 0.000
#> N.pout 0.00000 0.0000 0.00000 0.000 0.000 0.000 0.000
#> Herring 0.00000 0.0000 0.00000 0.000 0.000 0.000 0.000
#> Dab 0.00000 0.0000 0.00000 0.000 0.000 0.000 0.000
#> Whiting 0.00000 0.0000 0.00000 0.000 0.000 0.000 0.000
#> Sole 0.00000 0.0000 0.00000 0.000 0.000 0.000 0.000
#> Gurnard 0.00000 0.0000 0.00000 0.000 0.000 0.000 0.000
#> Plaice 14.36463 0.0000 0.00000 0.000 0.000 0.000 0.000
#> Haddock 213.08111 147.2376 51.65954 0.000 0.000 0.000 0.000
#> Cod 1998.48840 2145.1137 2292.18471 2432.926 2561.551 2671.428 2754.547
#> Saithe 1187.60744 1276.1291 1359.81220 1435.661 1500.371 1550.390 1582.007
#> w
#> sp 9690 11600 13800 16500 19600 23400 28000
#> Sprat 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Sandeel 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> N.pout 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Herring 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Dab 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Whiting 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Sole 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Gurnard 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Plaice 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Haddock 0.000 0.000 0.000 0.000 0.000 0.000 0.0000
#> Cod 2801.255 2800.051 2737.398 2597.556 2362.395 2011.133 1519.8699
#> Saithe 1591.399 1574.553 1526.909 1442.593 1313.140 1125.761 861.3869
#> w
#> sp 33400 39900
#> Sprat 0.0000 0.000000e+00
#> Sandeel 0.0000 0.000000e+00
#> N.pout 0.0000 0.000000e+00
#> Herring 0.0000 0.000000e+00
#> Dab 0.0000 0.000000e+00
#> Whiting 0.0000 0.000000e+00
#> Sole 0.0000 0.000000e+00
#> Gurnard 0.0000 0.000000e+00
#> Plaice 0.0000 0.000000e+00
#> Haddock 0.0000 0.000000e+00
#> Cod 860.6838 2.037268e-10
#> Saithe 492.8864 0.000000e+00
# }