Toolbox: degrad

Biodegradation of chemical compounds in batch cultures.

The theory for the models can be found in the DEB-book.


pirt

The Marr-Pirt model is a special case of the DEB model, and has the Monod model as special case. It concerns V1-morphs in a batch culture. Two data sets are required to estimate all parameters using routines nmregr, or nrregr: time-substrate-weight and time-biomass-weight matrices. The weight coefficients can be suppressed, in which case value one is inserted for all weight coefficients. The single data set time-substrate-weight is sufficient if the initial biomass concentration, the yield and maintenance rate coefficients are kept fixed.

Input:

Output:

An example of application of pirt in regression and plotting routines is given in the script-file mydata_pirt.


DEB

The DEB model concerns 1-structure, 1-reserve V1-morphs in a batch culture. The reserve density is treated as a hidden variable, and the measured biomass is taken to quantify structure. Two data sets are required to estimate all parameters using routines nmregr, or nrregr: time-substrate-weight and time-biomass-weight matrices. The weight coefficients can be suppressed, in which case value one is inserted for all weight coefficients.

Input:

Output:

An example of application of DEB in regression and plotting routines is given in the script-file mydata_deb.


Back to the DEBtool page