popgraph: This is an R package that constructs and manipulates population graphs.

This is a generic package that produces "Population Graphs" a graph-theoretic topology based upon conditional genetic covariance. This functionality used to be within the gstudio package, but has been taken out to focus on spatial integration of graph topologies with existing packages like sp, raster, and ggplot2.

AuthorRodney J. Dyer
Date of publication2014-06-03 01:34:35
MaintainerRodney J. Dyer <rjdyer@vcu.edu>
LicenseGPL (>= 2)
Version1.4

View on CRAN

Man pages

alt: Sonoran desert altitude.

arapat_mv: Araptus attenuatus data

arapat_pop: Arapat popualtion data

as.popgraph: Converts an object of type matrix or igraph into 'popgraph'

baja: Metadata for Baja Populations.

centroid_distance: This function takes a data set and a group set and returns...

centroid_variance: This function takes a data set and a group set and returns...

congruence_topology: Returns congruence topology

decorate_graph: Merge data into popgraph node-wise

geom_edgelabels: Plotting of a population graph edge labels using ggplot...

geom_edgeset: Plotting of a population graph edge set using ggplot neumonic

geom_nodeset: Plotting of a population graph edge set using ggplot neumonic

lopho: Lophocereus population graph

overlay_popgraph: Convience function to plot edges from 'popgraph'

permute_popgraph: Bootstraps indiviudals to see stability of graph topology.

popgraph: Default constructor for a 'PopulationGraph' object

popgraph-operator-minus: Overload '-' operator for pairs of 'popgraph' objects

popgraph-package: Package for the creation of population graph objects

read.popgraph: Reads in a population graph text file

test_congruence: Returns distance congruence between the two graphs

theme_empty: A blank theme for plotting networks

to_data.frame: Converts 'popgraph' to 'data.frame' based upon node...

to_html: Converts population graph to html file for interactive...

to_json: Converts to json representation

to_kml: Converts population graph to KML file

to_matrix: Matrix conversion for Population Graph

to_pgraph: Converts graph to a pgraph file format

to_SpatialLines: Converts edge set to SpatialLines object

to_SpatialPoints: Translate object into a SpatialPoints object

upiga: Upiga population graph

write_popgraph: Convience function for file exports

Files in this package

popgraph
popgraph/inst
popgraph/inst/tests
popgraph/inst/tests/test-popgraph.R
popgraph/inst/tests/test-to_json.R
popgraph/inst/tests/test-to_kml.R
popgraph/inst/tests/test-ops_popgraph.R
popgraph/inst/tests/test-to_matrix.R
popgraph/inst/tests/test-overlay_popgraph.R
popgraph/inst/tests/test-to_html.R
popgraph/inst/tests/test-to_pgraph.R
popgraph/inst/tests/test-as_popgraph.R
popgraph/inst/tests/test-congruence_topology.R
popgraph/inst/tests/test-to_SpatialLines.R
popgraph/inst/tests/test-write_popgraph.R
popgraph/inst/tests/test-read_popgraph.R
popgraph/inst/tests/test-to_SpatialPoints.R
popgraph/inst/tests/test-decorate_popgraph.R
popgraph/inst/tests/test-bootstrap_popgraph.R
popgraph/inst/tests/test-test_congruence.R
popgraph/inst/extdata
popgraph/inst/extdata/d3footer.html
popgraph/inst/extdata/lopho.pgraph
popgraph/inst/extdata/arapat_pops.rda
popgraph/inst/extdata/arapat_mv.rda
popgraph/inst/extdata/d3header.html
popgraph/tests
popgraph/tests/run-testthat-popgraph.R
popgraph/NAMESPACE
popgraph/NEWS
popgraph/data
popgraph/data/upiga.rda
popgraph/data/lopho.rda
popgraph/data/baja.rda
popgraph/data/alt.rda
popgraph/R
popgraph/R/to_data.frame.R popgraph/R/geom_edgeset.R popgraph/R/geom_edgelabels.R popgraph/R/centroid_variance.R popgraph/R/theme_empty.R popgraph/R/test_congruence.R popgraph/R/to_kml.R popgraph/R/to_SpatialLines.R popgraph/R/as_popgraph.R popgraph/R/centroid_distance.R popgraph/R/to_pgraph.R popgraph/R/to_html.R popgraph/R/to_json.R popgraph/R/write_popgraph.R popgraph/R/permute_popgraph.R popgraph/R/geom_nodeset.R popgraph/R/overlay_popgraph.R popgraph/R/ops_popgraph.R popgraph/R/to_SpatialPoints.R popgraph/R/congruence_topology.R popgraph/R/to_matrix.R popgraph/R/popgraph-package.R popgraph/R/decorate_graph.R popgraph/R/popgraph.R popgraph/R/read_popgraph.R
popgraph/vignettes
popgraph/vignettes/Popgraph.tex
popgraph/MD5
popgraph/DESCRIPTION
popgraph/man
popgraph/man/popgraph-operator-minus.Rd popgraph/man/popgraph-package.Rd popgraph/man/geom_edgelabels.Rd popgraph/man/to_data.frame.Rd popgraph/man/lopho.Rd popgraph/man/congruence_topology.Rd popgraph/man/permute_popgraph.Rd popgraph/man/arapat_mv.Rd popgraph/man/to_SpatialLines.Rd popgraph/man/geom_edgeset.Rd popgraph/man/baja.Rd popgraph/man/centroid_variance.Rd popgraph/man/to_pgraph.Rd popgraph/man/decorate_graph.Rd popgraph/man/geom_nodeset.Rd popgraph/man/overlay_popgraph.Rd popgraph/man/to_html.Rd popgraph/man/centroid_distance.Rd popgraph/man/to_json.Rd popgraph/man/test_congruence.Rd popgraph/man/to_kml.Rd popgraph/man/write_popgraph.Rd popgraph/man/as.popgraph.Rd popgraph/man/upiga.Rd popgraph/man/popgraph.Rd popgraph/man/theme_empty.Rd popgraph/man/arapat_pop.Rd popgraph/man/to_SpatialPoints.Rd popgraph/man/to_matrix.Rd popgraph/man/read.popgraph.Rd popgraph/man/alt.Rd

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