Post Vortex Simulation Analysis


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Documentation for package ‘vortexR’ version 1.1.7

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collate_dat Collate Vortex .dat or .stdat output files into one data.frame
collate_one_dat Collate one local Vortex output file into a data.frame
collate_proc_data Collate processed data generated by any of the 'collate' functions
collate_run Collate Vortex .run output files
collate_yr Collate Vortex .yr output files
CompileIter Compile iterations from one .yr file
conv_l_yr Convert 'census' data into long format
df2disk Save a data.frame as both Rdata and CSV
dot_plot Dot plots of mean Vortex parameters
fit_regression Search for the best regression model(s)
get_file_paths Return file paths of files matching a pattern in a directory
line_plot_year Line plots of Vortex parameters vs years
line_plot_year_mid Line plots of Vortex parameters vs years
lookup_table Summary table of simulation parameters
m_scatter Generates a matrix of scatter plots
Nadults Calculate the harmonic mean of the total number of adults
Ne Calculate the effective population size (Ne)
pac.clas Collated results from Vortex scenarios - Pacioni et al. (2017)
pac.clas.lookup Look-up table
pac.clas.Nadults Harmonic mean of adults and population sizes
pac.clas.Ne Effective population size
pac.clas.pairw Results of pairwise comparisons of simulation scenarios
pac.lhs Collated results from Vortex scenarios - Pacioni et al. (2017)
pac.run.lhs Collated results from Vortex scenarios - Pacioni et al. (2017)
pac.yr Collated results from Vortex scenarios - Pacioni et al. (2017)
pairwise Pairwise comparisons and ranks of scenarios
Pextinct Cumulative probability of extinction at the end of the simulation
PrefixAndRepeat Return a prefixed and repeated string of character
pval Calculates p-values from z-values
rRec Calculate the mean recovery rate (Pacioni et al 2017) and compare scenarios
se2sd Standard Error from a vector
SSMD_matrix Generate a SSMD matrix with all possible pairwise comparisons
sta.evy5 Collated results from Vortex scenarios - Campbell et al (2016)
sta.evy5.b11 Collated results from Vortex scenarios - Campbell et al (2016)
sta.main Collated results from Vortex scenarios - Campbell et al (2016)
vortexR vortexR: an R package for Post Vortex Simulation Analysis