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Documentation is\nprovided by several vignettes, and a paper (Chubaty, Galpern &\nDoctolero (2020) ).", "URL": "https://www.alexchubaty.com/grainscape/,\nhttps://github.com/achubaty/grainscape", "Version": "0.5.0", "Date": "2025-01-14", "Authors@R": "c(\nperson(\"Paul\", \"Galpern\", email = \"pgalpern@gmail.com\", role = c(\"aut\", \"cph\"),\ncomment = c(ORCID = \"0000-0003-0099-3981\")),\nperson(\"Sam\", \"Doctolero\", email = \"sam.doctolero@gmail.com\", role = \"aut\"),\nperson(\"Alex M\", \"Chubaty\", email = \"achubaty@for-cast.ca\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0001-7146-8135\"))\n)", "License": "GPL (>= 2)", "VignetteBuilder": "knitr, rmarkdown", "BugReports": "https://github.com/achubaty/grainscape/issues", "ByteCompile": "yes", "Collate": "'grainscape-package.R' 'classes.R' 'GOC.R' 'MPG.R'\n'RcppExports.R' 'grain.R' 'corridor.R' 'distance.R' 'export.R'\n'extract.R' 'ggGS.R' 'grainscape-deprecated.R' 'graphdf.R'\n'habitatConnectivityEngine.R' 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"Overview", "Finding the Minimum Planar Graph", "Technical reference to the MPG engine written in C++", "Terminology", "Data Structures", "Type Definitions", "The Engine Class", "Fields/Properties", "Methods/Functions", "Public Functions", "Patch Finding Functions", "Linking Functions", "Common Functions", "Static Functions", "How to Use the Engine" ], "created": "2016-08-11 16:40:05", "modified": "2025-01-15 03:35:44", "commits": 21 }, { "source": "grainscape_vignette.Rmd", "filename": "grainscape_vignette.pdf", "title": "Modelling, visualization and analysis with the grainscape package", "author": "Paul Galpern^[Department of Biological Sciences, University of Calgary, AB, Canada], Alex M. Chubaty^[FOR-CAST Research & Analytics, Calgary, AB, Canada]", "engine": "knitr::rmarkdown", "headings": [ "Visual table of contents", "Introduction", "Modelling with grainscape", "Model 1: The minimum planar graph", "Step 1: Preparing the resistance surface", "Step 2: Extracting the MPG", "Step 3: Quick visualization of the MPG", "Step 4: Reporting on the MPG", "Step 5: Thresholding the MPG", "Step 6: Visualizing a thresholded graph", "Step 7: Next steps", "Model 2: Patch grains of connectivity", "Step 1: Begin with a MPG", "Step 2: Exploring the Voronoi tessellation", "Step 3: Building GOC models", "Step 4: Visualizing a GOC model", "Landscape networks with 1D and 2D nodes", "Modelling", "Planar network with one-dimensional nodes on a Euclidean surface", "Make a new resistance raster of 400 by 400 cells", "with a coordinate system that corresponds to cells", "Assign all values to 1", "Create 20 \"random\" points representing nodes,", "(i.e. the loci of a process of interest)", "Represent these on a patch raster", "by duplicating the resistance raster and", "setting the relevant cells to 1", "Extract the MPG", "Plot the result using the quick 'network' visualization", "setting and add labels (dodging them by 3 to the upper-right)", "Planar network with one-dimensional nodes on a non-Euclidean resistance surface", "Add some cost values to the resistance", "surface we used in the last step", "Here we use random integers >= 2", "Extract the minimum planar graph using the", "raster made previously which represents the points only", "Plot the result using the quick 'mpgPlot' visualization", "This demonstrates the non-linear paths.", "Planar network with two-dimensional nodes on a non-Euclidean resistance surface (minimum planar graph)", "Load a land cover raster distributed with grainscape", "Convert land cover to resistance units", "Use an \"is-becomes\" reclassification", "Extract a network using cells = 1 on original raster", "as the focal patches or nodes", "Plot the minimum planar graph with node labels for several", "focal nodes of interest", "Visualization", "Centroid representation of nodes", "Perimeter representation of links", "Spatially-explicit representation of links", "Characteristics of nodes (weights)", "Characteristics of links (weights)", "Link thresholding by plotting", "Link thresholding to show components", "Analysis", "Network metrics to assess node importance", "Shortest-path distance between nodes", "Declare the start and end patchIds", "These were identified by plotting the patchIds (see earlier examples)", "Find the shortest path between these nodes using", "the shortest path through the resistance surface", "(i.e. weighted by 'lcpPerimWeight')", "Extract the nodes and links of this shortest path", "Produce shortest path tables for plotting", "Find the distance of the shortest path", "Plot shortest path", "Scaling landscape networks", "Modeling", "Scaling resistance surfaces (lattice grains of connectivity)", 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