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Apr 21, 2021
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Update spatial-modelling-inla.md #273

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12 changes: 6 additions & 6 deletions _tutorials/spatial-modelling-inla.md
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Original file line number Diff line number Diff line change
Expand Up @@ -326,7 +326,7 @@ require(rgdal)
Loc <- cbind(Point_Data$Easting, Point_Data$Northing)
# Then we can transform our dataset in a spatial object (a spatial point dataframe)
Fox_Point <- SpatialPointsDataFrame(coords = Loc, data = Point_Data, match.ID = T,
proj4string = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000"))
proj4string = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000 +ellps=airy +units=m +no_defs"))

par(mfrow = c(1,1), mar = c(1,1,1,1))
plot(Fox_Point, col = 2, pch = 16, cex = 0.5)
Expand Down Expand Up @@ -354,7 +354,7 @@ plot(Scot_Shape, add = T)

However, if we change the transform the CRS of `Scot_Shape` using the `spTransform()` function, we can correctly map correctly the fox scats and the Scotland shapefile together.
```R
foxcrs <- CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000")
foxcrs <- CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000 +ellps=airy +units=m +no_defs")

Scot_Shape_BNG <- spTransform(Scot_Shape, foxcrs)

Expand Down Expand Up @@ -728,14 +728,14 @@ xmean3 <- xmean2[rev(1:length(xmean2[,1])),]
xmean_ras <- raster(xmean3,
xmn = range(projgrid$x)[1], xmx = range(projgrid$x)[2],
ymn = range(projgrid$y)[1], ymx = range(projgrid$y)[2],
crs = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000"))
crs = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000 +ellps=airy +units=m +no_defs"))

xsd2 <- t(xsd)
xsd3 <- xsd2[rev(1:length(xsd2[,1])),]
xsd_ras <- raster(xsd3,
xmn = range(projgrid$x)[1], xmx =range(projgrid$x)[2],
ymn = range(projgrid$y)[1], ymx =range(projgrid$y)[2],
crs = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000"))
crs = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000 +ellps=airy +units=m +no_defs"))
```

`xmean_ras` and `xsd_ras` are raster items and can be exported, stored and manipulated outside R (including in GIS softwares) using the function `writeRaster()`.
Expand Down Expand Up @@ -888,14 +888,14 @@ predmean2 <- predmean[rev(1:length(predmean[,1])),]
predmean_ras <- raster(predmean2,
xmn = range(projgrid$x)[1], xmx = range(projgrid$x)[2],
ymn = range(projgrid$y)[1], ymx = range(projgrid$y)[2],
crs = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000"))
crs = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000 +ellps=airy +units=m +no_defs"))

predsd <- t(post.sd.pred.grid)
predsd2 <- predsd[rev(1:length(predsd[,1])),]
predsd_ras <- raster(predsd2,
xmn = range(projgrid$x)[1], xmx = range(projgrid$x)[2],
ymn = range(projgrid$y)[1], ymx = range(projgrid$y)[2],
crs = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000"))
crs = CRS("+proj=tmerc +lat_0=49 +lon_0=-2 +k=0.9996012717 +x_0=400000 +y_0=-100000 +ellps=airy +units=m +no_defs"))

# plot the model predictions for mean
par(mfrow = c(1,1), mar = c(2,2, 1,1))
Expand Down