osmose-package | OSMOSE: Modelling Marine Exploited Ecosystems |
configureCalibration | Reads calibration parameters from an osmose.config list. |
getAverageMortality | Computes the average mortality. |
getFishingBaseRate | Get fishing base rate. |
getFishingBaseRate.byDt | Get fishing base rate using time-step rates. |
getFishingBaseRate.byYear | Get fishing base rate using annual rates. |
getFishingBaseRate.constant | Get fishing base rate using constant rate |
getFishingBaseRate.linear | Get fishing base rate using a linear rate |
getFishingMortality | Get fishing mortality rate. |
getMortality | Get the total mortality rate. |
getMortalityDeviation | Computes the mortality deviation. The "proxy", which is removed, can be provided by the user in the "pars" argument. |
getOsmoseParameter | Get a parameter from a name chain (error if not found). |
getSizeSpectrum | Get size spectrum |
getVar | Get variable |
getVar.osmose | GetVar method for osmose objects |
osmose | OSMOSE: Modelling Marine Exploited Ecosystems |
osmose2R | Read OSMOSE outputs into an R object |
plot.osmose | Plot method for osmose objects |
print.osmose | Print informations about Osmose outputs |
print.summary.osmose | Print the summary informations about Osmose outputs |
readOsmoseConfiguration | Reads Osmose configuration files. |
readOsmoseFiles | Read Osmose output file |
read_osmose | Read OSMOSE outputs into an R object |
runOsmose | Run an OSMOSE configuration |
summary.osmose | Summarizes informations about Osmose outputs |
write.osmose | Write an array or dataframe in the Osmose format. The separator is ";", there are no quotes and a blank column is added for the row names column. |
writeFishingFiles | Write fishing files from osmose configuration list. |