osmose-package | OSMOSE: Modelling Marine Exploited Ecosystems |
.osmose.barplot | Plots a barplot, with xlabels rotated with a 45degree angle |
.osmose.format_data_stacked | Reformat the data into the ggplot2 stacked plot format. It returns a dataframe with specie, time and predation rate in the columns. |
.plot_osmose_dietMatrix | Plots diet matrix |
.read_2D | Generic function to read 2D output files (dietMatrix, sizeSpectrum, etc). If no file is found, it returns NULL. |
.read_osmose_ncdf | Function to read osmose netcdf files |
cacheManager | Manage the cache |
configureCalibration | Reads calibration parameters from an osmose.config list. |
getVar | Get variable from an 'osmose'-like object. |
get_var | Get variable from an 'osmose'-like object. |
get_var.osmose | get_var method for osmose outputs objects |
get_var.osmose.config | get_var method for osmose configuration objects |
osmose | OSMOSE: Modelling Marine Exploited Ecosystems |
osmose2R | Read OSMOSE outputs into an R object |
osmose_demo | Generates required OSMOSE configuration files to run a demo. |
plot.osmose | Plot method for osmose objects |
plot.osmose.abundance | Plot method for osmose objects |
plot.osmose.abundanceByAge | Plot method for osmose objects |
plot.osmose.abundanceBySize | Plot method for osmose objects |
plot.osmose.abundanceByTL | Plot method for osmose objects |
plot.osmose.biomass | Plot method for osmose objects |
plot.osmose.biomassByAge | Plot method for osmose objects |
plot.osmose.biomassBySize | Plot method for osmose objects |
plot.osmose.biomassByTL | Plot method for osmose objects |
plot.osmose.config | Plot method for 'osmose.config' objects |
plot.osmose.config.predation | Plot method for 'osmose.config' objects |
plot.osmose.config.reproduction | Plot method for 'osmose.config' objects |
plot.osmose.config.species | Plot method for 'osmose.config' objects |
plot.osmose.yield | Plot method for osmose objects |
plot.osmose.yieldByAge | Plot method for osmose objects |
plot.osmose.yieldBySize | Plot method for osmose objects |
plot.osmose.yieldN | Plot method for osmose objects |
plot.osmose.yieldNByAge | Plot method for osmose objects |
plot.osmose.yieldNBySize | Plot method for osmose objects |
print.osmose | Print information for an 'osmose' object |
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 |
report | Report method |
report.osmose | Report method for 'osmose' objects |
runOsmose | Run an OSMOSE configuration |
run_osmose | Run an OSMOSE configuration |
summary.osmose | 'osmose' object summaries |
summary.osmose.dietMatrix | Title |
summary.osmose.mortalityRate | Title |
updateCache | Update the cache for the different function |
write.osmose | Write data in osmose format |
write_osmose | Write data in osmose format |