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The MEND configuration is based off of Wang et al. 2013. This configuration uses MM for DOM uptake, MM for POM decomposition, and LM for MB decay; see dynamics for more details.

Usage

MEND_config

Format

An object created from memc_configure.

name

MEND

table

table of the dynamics used by this model configuration; see dynamics for more details.

params

data table of the model parameters; see memc_params for more details.

state

vector of the initial state values; see memc_initial_state for more details.

References

Wang et al. 2013

Examples

## Use memc_solve to run the simulation using this configuration.
print(MEND_config)
#> $name
#> [1] "MEND"
#> 
#> $table
#>   model DOMuptake POMdecomp MBdecay
#> 1  MEND        MM        MM      LM
#> 
#> $params
#>    parameter                                              description
#> 1        V_p        maximum specific decomposition rate for POM by EP
#> 2        K_p        half-saturation constant for decomposition of POM
#> 3        V_m        maximum specific decomposition rate for MOM by EM
#> 4        K_m        half-saturation constant for decomposition of MOM
#> 5        V_d       maximum specific uptake rate of D for growth of MB
#> 6        K_d half-saturation constant of uptake of D for growth of MB
#> 7        f_d                fraction of decomposed P allocated to DOM
#> 8        g_d                      fraction of dead B allocated to DOM
#> 9       p_ep                      fraction of mR for production of EP
#> 10      p_em                      fraction of mR for production of EM
#> 11      r_ep                                      turnover rate of EP
#> 12      r_em                                      turnover rate of EM
#> 13     Q_max                            maximum DOC sorption capacity
#> 14     K_ads                                 specific adsorption rate
#> 15     K_des                                          desorption rate
#> 16   dd_beta            strength of density dependent microbial decay
#> 17 Input_POM                                               POM input 
#> 18 Input_DOM                                                DOM input
#> 19       CUE                                    carbon use efficiency
#>              units   value
#> 1  mgC mgC^-1 d^-1  14.000
#> 2     mgC / g soil  50.000
#> 3  mgC mgC^-1 d^-1   0.250
#> 4      mg C/g soil 250.000
#> 5  mgC mgC^-1 d^-1   3.000
#> 6      mg C/g soil   0.250
#> 7             <NA>   0.500
#> 8             <NA>   0.500
#> 9             <NA>   0.010
#> 10            <NA>   0.010
#> 11 mgC mgC^-1 d^-1   0.001
#> 12 mgC mgC^-1 d^-1   0.001
#> 13    mgC / g soil   3.400
#> 14 mgC mgC^-1 d^-1   0.006
#> 15 mgC mgC^-1 d^-1   0.001
#> 16            <NA>   1.000
#> 17            mg C   0.000
#> 18            mg C   0.000
#> 19                   0.400
#> 
#> $state
#>      POM      MOM      QOM       MB      DOM       EP       EM       IC 
#> 10.00000  5.00000  0.10000  2.00000  1.00000  0.00001  0.00001  0.00000 
#>      Tot 
#> 18.10002 
#> 
memc_solve(mod = MEND_config, time = 1:10)
#>      time variable        value       units   name
#>     <num>   <fctr>        <num>      <char> <char>
#>  1:     1      POM 10.000000000 mg C/g soil   MEND
#>  2:     2      POM 10.855361397 mg C/g soil   MEND
#>  3:     3      POM 11.153753353 mg C/g soil   MEND
#>  4:     4      POM 11.223634295 mg C/g soil   MEND
#>  5:     5      POM 11.206083983 mg C/g soil   MEND
#>  6:     6      POM 11.154576883 mg C/g soil   MEND
#>  7:     7      POM 11.089568492 mg C/g soil   MEND
#>  8:     8      POM 11.019084570 mg C/g soil   MEND
#>  9:     9      POM 10.946405245 mg C/g soil   MEND
#> 10:    10      POM 10.872939845 mg C/g soil   MEND
#> 11:     1      MOM  5.000000000 mg C/g soil   MEND
#> 12:     2      MOM  5.012398354 mg C/g soil   MEND
#> 13:     3      MOM  5.040316423 mg C/g soil   MEND
#> 14:     4      MOM  5.074505205 mg C/g soil   MEND
#> 15:     5      MOM  5.111070420 mg C/g soil   MEND
#> 16:     6      MOM  5.148467662 mg C/g soil   MEND
#> 17:     7      MOM  5.186080676 mg C/g soil   MEND
#> 18:     8      MOM  5.223655417 mg C/g soil   MEND
#> 19:     9      MOM  5.261082319 mg C/g soil   MEND
#> 20:    10      MOM  5.298311884 mg C/g soil   MEND
#> 21:     1      QOM  0.100000000 mg C/g soil   MEND
#> 22:     2      QOM  0.101258165 mg C/g soil   MEND
#> 23:     3      QOM  0.101613518 mg C/g soil   MEND
#> 24:     4      QOM  0.102018644 mg C/g soil   MEND
#> 25:     5      QOM  0.102509140 mg C/g soil   MEND
#> 26:     6      QOM  0.103122851 mg C/g soil   MEND
#> 27:     7      QOM  0.103891499 mg C/g soil   MEND
#> 28:     8      QOM  0.104837020 mg C/g soil   MEND
#> 29:     9      QOM  0.105972524 mg C/g soil   MEND
#> 30:    10      QOM  0.107304859 mg C/g soil   MEND
#> 31:     1       MB  2.000000000 mg C/g soil   MEND
#> 32:     2       MB  0.934701108 mg C/g soil   MEND
#> 33:     3       MB  0.361892620 mg C/g soil   MEND
#> 34:     4       MB  0.143662614 mg C/g soil   MEND
#> 35:     5       MB  0.059352006 mg C/g soil   MEND
#> 36:     6       MB  0.025826064 mg C/g soil   MEND
#> 37:     7       MB  0.011900144 mg C/g soil   MEND
#> 38:     8       MB  0.005802372 mg C/g soil   MEND
#> 39:     9       MB  0.002981106 mg C/g soil   MEND
#> 40:    10       MB  0.001604872 mg C/g soil   MEND
#> 41:     1      DOM  1.000000000 mg C/g soil   MEND
#> 42:     2      DOM  0.063654080 mg C/g soil   MEND
#> 43:     3      DOM  0.069547559 mg C/g soil   MEND
#> 44:     4      DOM  0.080993830 mg C/g soil   MEND
#> 45:     5      DOM  0.099024321 mg C/g soil   MEND
#> 46:     6      DOM  0.123240408 mg C/g soil   MEND
#> 47:     7      DOM  0.152114563 mg C/g soil   MEND
#> 48:     8      DOM  0.183967832 mg C/g soil   MEND
#> 49:     9      DOM  0.217502598 mg C/g soil   MEND
#> 50:    10      DOM  0.251867257 mg C/g soil   MEND
#> 51:     1       EP  0.000010000 mg C/g soil   MEND
#> 52:     2       EP  0.017964291 mg C/g soil   MEND
#> 53:     3       EP  0.025175752 mg C/g soil   MEND
#> 54:     4       EP  0.027975984 mg C/g soil   MEND
#> 55:     5       EP  0.029087487 mg C/g soil   MEND
#> 56:     6       EP  0.029539414 mg C/g soil   MEND
#> 57:     7       EP  0.029724417 mg C/g soil   MEND
#> 58:     8       EP  0.029796061 mg C/g soil   MEND
#> 59:     9       EP  0.029816877 mg C/g soil   MEND
#> 60:    10       EP  0.029813633 mg C/g soil   MEND
#> 61:     1       EM  0.000010000 mg C/g soil   MEND
#> 62:     2       EM  0.017964291 mg C/g soil   MEND
#> 63:     3       EM  0.025175752 mg C/g soil   MEND
#> 64:     4       EM  0.027975984 mg C/g soil   MEND
#> 65:     5       EM  0.029087487 mg C/g soil   MEND
#> 66:     6       EM  0.029539414 mg C/g soil   MEND
#> 67:     7       EM  0.029724417 mg C/g soil   MEND
#> 68:     8       EM  0.029796061 mg C/g soil   MEND
#> 69:     9       EM  0.029816877 mg C/g soil   MEND
#> 70:    10       EM  0.029813633 mg C/g soil   MEND
#> 71:     1       IC  0.000000000 mg C/g soil   MEND
#> 72:     2       IC  1.096718313 mg C/g soil   MEND
#> 73:     3       IC  1.322545023 mg C/g soil   MEND
#> 74:     4       IC  1.419253443 mg C/g soil   MEND
#> 75:     5       IC  1.463805157 mg C/g soil   MEND
#> 76:     6       IC  1.485707304 mg C/g soil   MEND
#> 77:     7       IC  1.497015792 mg C/g soil   MEND
#> 78:     8       IC  1.503080668 mg C/g soil   MEND
#> 79:     9       IC  1.506442454 mg C/g soil   MEND
#> 80:    10       IC  1.508364017 mg C/g soil   MEND
#> 81:     1      Tot 18.100020000 mg C/g soil   MEND
#> 82:     2      Tot 17.003301687 mg C/g soil   MEND
#> 83:     3      Tot 16.777474977 mg C/g soil   MEND
#> 84:     4      Tot 16.680766557 mg C/g soil   MEND
#> 85:     5      Tot 16.636214843 mg C/g soil   MEND
#> 86:     6      Tot 16.614312696 mg C/g soil   MEND
#> 87:     7      Tot 16.603004208 mg C/g soil   MEND
#> 88:     8      Tot 16.596939332 mg C/g soil   MEND
#> 89:     9      Tot 16.593577546 mg C/g soil   MEND
#> 90:    10      Tot 16.591655983 mg C/g soil   MEND
#>      time variable        value       units   name