| batch.coexistence | batch anlaysis of coexistence summary tables |
| batch.mcoexistence | batch anlaysis of multiple coexistence summary tables, the... |
| batch.monepar | batch analysis to explore multiple species coexistence... |
| batch.mpaircomp | batch analysis to explore coexistence density for different... |
| batch.n2n | batch analysis of niche and neutral/nearly-neutral cases for... |
| batch.onepar | batch analysis to explore coexistence density for handling... |
| batch.paircomp | batch analysis to explore coexistence density for handling... |
| batch.pdf.onepar | batch mode to plot matrix heatmap graphics for different... |
| batch.pdf.pairpar | batch analysis to plot matrix heatmaps for pairwise parameter... |
| batch.read | batch read different file data based on the order... |
| coexist-package | species coexistence modeling and analysis |
| comblist | construct a full list of all combinations of parameters |
| comblist2 | construct a full list of all combinations of parameters |
| competition | perform competition analysis in the 2-species modeling |
| compvar | competition parameters' matrix |
| convert.filenames | convert saved data sets' names in to a vector based on the... |
| dispersal | perform dispersal analysis for each simulation time step for... |
| dispvar | dispersal parameters' matrix |
| fast.flexsim | faster multiple species simulation, but just a bit, not fast... |
| filename.check | open,check and create a new folder if not existed |
| flex.competition | perform flexible competition analysis allowing multiple... |
| flex.dispersal | perform species-specific dispersal and fluctuating source... |
| flexsim | species coexistence simulation for multiple-species modeling... |
| make.heatmap | make a heatmap based on matrix values |
| make.parcomb | make the parameter combination index matrix |
| parsetting | rate vector for each species at each island, called widely by... |
| plot_n2n | plot distribution of niche and neutral coexistence patterns... |
| read.data | read data with paramter combination index file |
| read.patchdata | read species abundance data from the patches, an internal... |
| sim.coarse | 2-species coexistence modeling based on the matrix listing... |
| spabundance | initialization of species' abundance across the... |
| sta.coexistence | posterior coexistence analysis |
| sta.comparison | posterior different parameter rate comparison for a single... |
| sta.fitness | fitness/abundance comparison for neutral versus niche cases... |
| sta.mcoexistence | basic posterior coexistence analysis for a single scenario of... |
| sta.mcomparison | posterior different parameter rate comparison for a single... |
| sta.mpaircomparison | pairwise parameter comparison for multiple species with... |
| sta.paircomparison | pairwise parameter comparison for 2-species model |
