Man pages for wStockhausen/rDisMELS
Basic functions for dealing with DisMELS IBM model output
| addGuards | Add guards to column names |
| byGridCell_CalcAbundance | Calculate abundance of individuals by grid cell |
| byGridCell_CalcStats | Calculate statistics for results by grid cell |
| byGridCell_CreateSFDataset | Create a map layer with values by grid cell |
| byGridCell_GridOps | Perform a mathematical operation on values by grid cell in... |
| byGridCell_ScalarOps | Perform a scalar operation on grid cell values |
| calcConnectivityMatrix | Calculate a connectivity matrix dataframe from a connectivity... |
| calcConnectivityMatrixAlt | Calculate a connectivity matrix dataframe classified by... |
| calcConnectivityMatrixDiffs | Calculate differences between connectivity matrices |
| calcMeanConnectivityMatrices | Calculate a set of mean connectivity matrices |
| calcMeanConnectivityMatrix | Calculate mean connectivity matrix |
| checkConnectivityZones | Check connectivity zones for possible problems |
| createConnectivityWeb | Create a 'sf' dataframe with lines between connectivity zones |
| getStandardAttributes | Get standard attribute names for DisMELS output |
| ggMap_Connectivity | Create a 'ggplot2' map object of a connectivity matrix |
| ggMap_getBasemapLayers | Create basemap layers for maps based on the 'ggplot2' package |
| ggMap_getROMSGridLayers | Create ROMS grid layers for maps based on the 'ggplot2'... |
| ggMap_IndivLocations | Create a ggplot2 object with individual locations from a 'sf'... |
| ggMap_IndivTrajectories | Plot trajectories from a DisMELS model run by start zone |
| ggMap_sf | TODO: finish. Create a ggplot2 object with maps from a 'sf'... |
| indivsInfo_AddPointGeometries | Add point geometries to a list dataframes from DisMELS output |
| indivsInfo_AssignZones | Assign zones to individuals based on location(s) |
| indivsInfo_ClassifyBySuccess | Classify an indivsInfo dataframe by individual success |
| indivsInfo_ExtractEnd | Extract info by individual at end of life or model run |
| indivsInfo_ExtractEndByStage | Extract info by individual at end of each life stage |
| indivsInfo_ExtractMaxAge | Extract age for each individual at end of life or model run |
| indivsInfo_ExtractOriginalsBySuccess | Extract a dataframe of original IDs classified by success |
| indivsInfo_ExtractStart | Extract info on individuals at start of initial life stage |
| indivsInfo_ExtractStartEnd | Extract info by individual at start and end of life or model... |
| indivsInfo_ExtractStartEndByStage | Extract info by individual at start and end of life or model... |
| indivsInfo_ExtractTrajectories | Extract trajectories from DisMELS output as a list of 'sf'... |
| indivsInfo_ReorderResults | Reorder a set of IBM results by life stage, individual and... |
| parseTracks | Create an sf (simple features) column with linestring... |
| plotConnectivityMatrix | Create a 'ggplot2' connectivity matrix plot object |
| tmap_CreateBasemap | Create a 'tmap'-style basemap |
| tmap_CreateLayers_Locations | Create 'tmap'-style layers from a list of dataframes with... |
| tmap_CreateLayer_ValuesByGridCell | Create a 'tmap'-style map layer with values by grid cell |
| toCamelCase | Convert strings to camel case |
| unzipDisMELSResults | Unzips and renames a series of DisMELS results or... |
| writeIndivConns | Write dataframe with individual connectivity results to files... |
| zipDisMELSResults | Reorder a set of IBM results by life stage and individual |
