Man pages for PacificCommunity/ofp-sam-vast-utils
Utility functions for applying VAST to analysis of WCPFC tuna fisheries data.
| area.cell | Get the area of each longitude by latitude cell. Adjust for... |
| calc.clockwise.angle | Calculate the clockwise angle between two vectors Vectors are... |
| chaikin.open | Chaikin corner cutting algorithm for open segments Used... |
| coast | A shapefile of coastline centered on the pacific ocean |
| Convert_EN_to_LL_Fn.ndd | Function to convert points stored as eastings and northings... |
| Convert_LL_to_EastNorth_Fn.ndd | Function to convert points stored as lat-lon to eastings and... |
| Data_Geostat | A simulated data set approximating skipjack biomass in the... |
| enviro | A a named-list of length two is required: "formula" is a... |
| epo.shp | A SpatialPolygons object containing the boundaries of the... |
| fit.vast | Fits a VAST model, compatible with VAST v8_3_0 through... |
| make_covariates.ndd | Is exactly the same as JT FishStatUtils function except it... |
| make_extrapolation_info.ndd | modified from Jim Thorson's... |
| make_spatial_info.ndd | Build objects related to spatial information, and is exactly... |
| pacific.coast | A shapefile of coastline centered on the pacific ocean |
| plot.compare.vast.index | Plot comparison of multiple fit.vast model fits. |
| plot.dharma.resid | Plot DHARMa style residuals for VAST model. |
| plot.knots | Given fit.vast output, plot the knots and regional structure |
| plot.qq.wrap | Plot Q-Q plot for aggregate model fit. Currently only... |
| plot.vast.enviro.response | Plot estimated catchability effects. Currently assumes only... |
| plot.vast.index | Plot index from fit.vast model fit. |
| plot.vast.influ | Influence plot for fitted model from fit.vast. Currently... |
| plot.vast.q.estimates | Plot estimated catchability effects. Currently assumes only... |
| plot.vast.space.time | Plot vast output by spatial knots and time block. |
| po.all | A SpatialPolygons object containing the approximate... |
| skj.alt2019.shp | A SpatialPolygons object containing the boundaries of the... |
| smooth.hull.sp | Calculate a smooth hull around a set of points Calculate a... |
| thicken.poly | Function to make polygon "thicker", useful when transforming... |
| vast.frq.index | Format the estimated index for use in MFCL |
| wcpo.10N.shp | A SpatialPolygons object containing the boundaries of the... |
| wcpo.20N.shp | A SpatialPolygons object containing the boundaries of the... |
