Statistical computing language and software environment.

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5
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597 views

How to get rpy2 for QGIS on OSX?

I am a new QGIS user, have installed QGIS on a Mac running Snow Leopard OSX 10.6.8 following all the instructions. QGIS seems to work well for everything other than when I boot up I get the message ...
4
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28 views

Classical or robust variogram for incorporation into generalized linear model

I'm modeling counts of organisms over time at eleven locations. I'd like to account for temporal autocorrelation in the counts, assuming it's present. As the data are not equally spaced in time, ...
4
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397 views

Using stat_density2d with coord_map in ggplot2

In my example I am plotting a shapefile for all England & Wales, however I'm interested in the greater London area. If I allow ggplot to simply default and display the entire shapefile then the ...
4
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0answers
163 views

How to build Poisson autoregression model

I have a SpatialPolygonsDataFrame object in R with about 3000 polygons and associated data. I have columns of expected and observed cases. For the moment, I don't have any covariates. I'd like to ...
4
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0answers
181 views

Cut polygon and retain data

I have these two polygons: library(sp); library(rgeos); library(maptools) coords1 <- matrix(c(-1.841960, -1.823464, -1.838623, -1.841960, 55.663696, 55.659178, 55.650841, ...
3
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36 views

Resampling air temperature gridded data to sub-grid resolution

I'd like to obtain a 30-m resolution gridded dataset of air temperature from the ~1km gridded data of WorldClim, of Hijmans et al., 2005) for a mountainous region. The easiest procedure (I thought ...
3
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0answers
27 views

How to calculate 90% confidence interval in a raster stack

I have a stack of grid files (23) in ASC format from a MODIS sensor and I need to calculate a 90% confidence interval, mean, min, etc, for each one in R, how can I do that? specially the interval. ...
3
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42 views

Multispectral image segmentation for natural-resources applications using R

R has the capacity for image segmentation, although all of the examples I have come across utilize a single band for the segmentation (example). I am interested in combining R's capacity for random ...
3
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36 views

Spatial interpolation with breaklines in R

I have a dataset consisting of irregularly-spaced points (x,y,value) that represent an area of ocean that contains some land. I need to interpolate these to a regular grid, ensuring that the ...
3
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157 views

R Raster package loop over pixels

I want to perform a trend analysis for each pixel over it's time dimension. Therefore I wrote a loop over each pixel doing the calculation but this is extremely slow. I am sure there must be a faster ...
3
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0answers
118 views

Performing cluster analysis in R with Point Datasets

I am a R-Beginner, but I want to use it for some spatial statistics. I want to check the relation between the occurrence of ill persons and the existence of water in a area of interest. To give you a ...
3
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352 views

Fortifying re-projected shapefile for ggplot2 in R

I have a shapefile of US county boundaries which I got from the NHGIS. I can load the file using the rgdal package and see information about it: library(rgdal) shp_1860 <- readOGR("shp", ...
3
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250 views

R with ggplot2/ggmap - How to load a png image as a map

I am trying to find a workaround for ggmap's missing support of world maps (i.e. you can't create any maps that show latitudes > 80°, due to idiosyncrasies in the mapproj package). To a limited extend ...
3
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0answers
108 views

Can extracting raster values work in polygons' CRS without raster resampling?

I am trying to extract raster values using polygon layer with different CRS. Raster is in WGS84 (EPSG:4326) and the polygons in UTM (EPSG:23031). 1. If I want to work in the projection of the ...
3
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171 views

Is co kriging appropriate for interpolation of three spatial co variates?

I want to estimate an interpolation model(s) for daily minimum temperature, daily maximum temperature and daily rainfall. I have samples of approximately the same size for all three variables at ...
3
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0answers
283 views

Novel ways of filling in missing values in a raster

I am looking for robust ways to fill in missing values in some rasters. They all have a single layer. Missing values consist of single pixels to medium sized patches. Rasters are around 1000 x 1000 ...
3
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0answers
640 views

How to Export a Shapefile as KML Using R

All, I have exported an ESRI shapefile (polygon) to KML using R, but the resulting layer shows only the outer extent of the polygon. How can I fill in the area with a color? Any help is greatly ...
3
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248 views

How do I access layer attributes from within QGIS' manageR plugin?

This is probably a fairly basic question, but searches for manageR come up with a lot of noise, and there's no manageR tag. What I'd like to do is load the attributes from a particular field of a ...
2
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0answers
41 views

Using R to subtract the polygon area of one shp file from another

I'm looking to produce a map from two separate maps in R. My Maps files are as follows: ftp://ftp.cpc.ncep.noaa.gov/GIS/us_tempprcpfcst/610prcp_20140822.zip #Map1 ...
2
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0answers
100 views

Variogram model fit compatability among geoR, gstat, and nlme packages in R

I'm trying to specify the covariance structure parameters in a linear mixed model (using the correlation structure facilities in nlme). The parameters are estimated from a gstat or geoR variogram ...
2
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0answers
101 views

Doubts with Ripley's K function Interpretation

I'm a self-taught person, I'm studying the K Ripley's function and I would need some person who give me some advices. First, I have written a little script of R in QGIS processor: ##Point pattern ...
2
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43 views

R: Can raster predict function pass to predict.rfsrc (a prediction function in a parallel verion of RandomForest)?

It seems that raster predict function can pass to predict.randomForest by setting the "type='response'". I am using a parallel version of randomForest package called the "randomForestSRC" and I am ...
2
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0answers
101 views

Three-dimensional interpolation of temperature profiles using gstat in R?

I'm working on a problem in which I'd like to interpolate a set of oceanographic temperature profiles over a three-dimensional matrix of unsampled x, y, & z locations. The data to interpolate is ...
2
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0answers
81 views

Ecoregions shapefiles: subsetting, extracting and summarizing data from raster

I am attempting to subset and project an ecoregions shapefile from : EPA ECOREGIONS my data set is found here: SHAPEFILES and RASTER When I run this code, two major problems occur: 1) I cannot get the ...
2
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0answers
28 views

In R, set NA cells in one raster where another raster has values

I have two rasters in R. I want to set values to NA in the first raster where the second raster has values. I think this should be simple, using the raster package, with two RasterLayer objects ...
2
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76 views

R - how to create a pre-determined number of identical square polygons to use for a choropleth map?

I am trying to plot crime data density (again!) over a city map, say of NY. As a well known problem there are plenty of examples on this ...
2
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101 views

Decision tree classification of satellite image in R

I want to classify satellite image in R using RWeka classifier, J48. I have a CSV file with the classes required, and raster data loaded in R. I am able to make the tree, however, I am not able to use ...
2
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0answers
79 views

python equivalent of spatstat's spatial point process functions

Is there a free python package (i.e. PySAL?) that implements the standard summary statistics for spatial point processes, e.g. the F, G, J, and K functions? I'm happy to use R (i.e. spatstat) if ...
2
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0answers
125 views

Joining nearest neighbor small polygons using R

The figure shows a plot of numerous polygons (zoom in) made from a raster file by require(sp) require(raster) pol100 <- rasterToPolygons(r, fun=function(x){x==1}, dissolve=FALSE) There polygon ...
2
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0answers
244 views

Mapping Geocoded addresses onto Census shapefiles in R

I have a list of addresses that I have geocoded to get the corresponding longitude and latitude. > AddressDetail <- geocode(match_address) > coordinates(AddressDetail) <- c("lon", "lat") ...
2
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198 views

R, GeoJSON and Leaflet

I recently learned about leafletjs.com from an R-Bloggers.com post. One such tutorial that I would like to achieve is to create interactive choropleth maps with leaflet. I have been using the rjson ...
2
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147 views

Moving point on OpenStreetMap route

Basically I generate random numbers in R language which are indeed times between bus arrivals. I need to simulate a moving point(a bus) in OpenStreetMap by using this generated numbers. I have read ...
2
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0answers
244 views

How to load big ASCII rasters in Revolution R?

Is there anyone in this site using Revolution R with big spatial data ? I am trying to load raster files (ascii format) into revolution r using the xdf format, with no luck. Did anyone tried this ...
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0answers
57 views

Using r, readShapeSpatial fails with simplified mapshaper.org shape

So I'm mapping out the postal regions of my country and it's an enormous, 5.4million row dataframe. I don't need every single little twist and turn of the boundries, so I was super excited to ...
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0answers
43 views

R-Studio - Bare Soil Line using landsat data in R

I am using R-studio with landsat package for computing and plotting the Bare Soil Line (BSL) on landsat tif image running on my HP Pavilion i7 laptop. The codes for running the BSL() function is as ...
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0answers
47 views

Calculating surface and lines in 3D projection in R

For my internship research I am trying to compare the surfacearea and length of geometric shapes and lines in one coordinate system to another. I have a SpatialPolygonDataFrame in the European equal ...
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51 views

Rounding off coordinates in an SpatialPolygonDataFrame in R

EDIT AFTER COMMENTS After a comment of Whuber (Thank you!) I realized it will probably be most easy to incorporate a round(...) statement within my code to be able to work with less decimals. ...
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32 views

QGIS using different R lib

I am working with a colleague who is learning QGIS and has a question about the R plugin. His library path (.libPaths()) has two folders: "C:/Users/RDCERWAW/Documents/R/win-library/3.0" "C:/Program ...
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0answers
40 views

Monte Carlo test of Space-Time clustering in R

I have several point patterns representing the distribution of territories of a bird species. Each point pattern represents the distribution of one year. I already succeeded in computing Ripley's L ...
1
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0answers
39 views

spatialpolygons heatmap in R - NAs in grey?

I have a spatial polygon data-frame and I am trying to plot a heatmap via spplot. It's a map of Europe and the values for the heatmap are in a column of the data-frame. Plotting it works fine but I ...
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0answers
34 views

Not able to bulk download MODIS images

I am trying to download Modis NDVI and EVI images. I have used the following R-code: setwd("/home/karthik/Valmiki/Modis_bands/") library(raster) library(RCurl) ...
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79 views

What's the difference in these two shp files?

I'm trying to plot points on these maps in R, with points from "Coordinates" in the same folder. The WL.shp plots fine with the data, but the NG.shp (which should only be larger and of the same area ...
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0answers
104 views

NAs not allowed error message in attempt to plot raster object in R

I have imported a clipped raster (performed in ArcGIS 10.1) from the National Landcover Dataset into R, but when I try to plot I get the following error message. Error in .readCellsGDAL(x, ...
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0answers
34 views

R{raster} getValues(): error accessing values of large raster

I am getting the following, while extracting all values with: rs<-getValues(rster) Error in getRasterData(con, offset = offs, region.dim = reg, band = object at data@band): long vectors not ...
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55 views

How do I convert a .bil (and associated .clr, .blw, .hdr, and .stx) files into georeferenced rasters in R? OR to geotiffs using gdal_translate?

The title says it all. I've got a bunch of .bil files, which I can open in R using the raster command pointed to the path to the .bil file. But I don't know how to efficiently incorporate the ...
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0answers
24 views

Finding the best way to prepare raster image for a function in R

I'd like to ask what is the best way to prepare big raster images in R to run a function on whole images. I have 30 tiff images with the size of ncol=12648, nrow=4144. I read them in R separately. ...
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0answers
43 views

Error with “lowess” function in R

I have a problem with lowess function to smooth NDVI as a time in R. Here is the scripts I run: #Create a time vector to act as x time<-sort(sample(97:297, nlayers(ndvi2000crop1))) ...
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0answers
56 views

Is there any issue using R scripts with sextante processing framework?

I want to use R scripts from the module Sextante treatment QGIS , but I have many difficulties to configure the module in Sextante . Following the procedure described in the official documentation of ...
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0answers
40 views

Lagrange Multiplier in lm.LMtests (spdep package for R)

Are the Lagrange values comparable in lm.LMtests? If both RLMerr and RLMlag are significant, would the test with the largest Lagrange value be considered 'better' at explaining the spatial ...
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32 views

Analyse effect of groups on raster maps

I work with a mechanistic model that uses climate data to simulate some specific output for different time steps and spatial locations. Now I want to investigate the effect of different climate data ...