CNPDIA-package {CNPDIA} | R Documentation |
CNPDIA is a 1-D model of Carbon, nitrogen, phosphorus and oxygen diagenesis in a marine sediment. It is based on the OMEXDIA model, extended with simple P dynamics and with microphytobenthos dynamics.
The model describes twelve state variables, in 100 layers:
2 fractions of organic carbon (FDET,SDET): fast and slow decaying, solid substance.
Oxygen (O2), dissolved substance.
Nitrate (NO3), dissolved substance.
Nitrite (NO2), dissolved substance.
Ammonium (NH3), dissolved substance.
Oxygen demand unit (ODU), dissolved substance, as a lump sum of all reduced substances other than ammonium.
Phosphate (PO4), dissolved substance
Iron-bound P (FeP), P bound to iron oxides, solid substance
Ca-bound P (CaP), P bound to iron oxides, solid substance
dissolved inorganic carbon (DIC), dissolved substance
adsorbed P (Pads), solid substance
Concentrations of liquids and solids are expressed in [nmol/cm3 liquid] and [nmol/cm3 solid] respectively. See Soetaert et al., 1996 for further details of the original OMEXDIA model.
MPBDIA extends the CNPDIA model with microphytobenthos dynamics. In addition to the CNPDIA state variables it also describes the following state variables:
MPBC, microphytobenthos carbon, [mmolC/m3 solid]
MPBN, microphytobenthos nitrogen, [mmolN/m3 solid]
MPBC, microphytobenthos chlorophyll, [mgChl/m3 solid]
EPS, extracellular polymeric substance, [mmolC/m3 solid]
PSIIin, fraction of photosynthesis system II that is in inhibited state [-]
The models are implemented in fortran and linked to R.
Karline Soetaert
Soetaert K, PMJ Herman and JJ Middelburg, 1996a. A model of early diagenetic processes from the shelf to abyssal depths. Geochimica Cosmochimica Acta, 60(6):1019-1040.
Soetaert K, PMJ Herman and JJ Middelburg, 1996b. Dynamic response of deep-sea sediments to seasonal variation: a model. Limnol. Oceanogr. 41(8): 1651-1668.