Package: PairViz 1.3.6

PairViz: Visualization using Graph Traversal

Improving graphics by ameliorating order effects, using Eulerian tours and Hamiltonian decompositions of graphs. References for the methods presented here are C.B. Hurley and R.W. Oldford (2010) <doi:10.1198/jcgs.2010.09136> and C.B. Hurley and R.W. Oldford (2011) <doi:10.1007/s00180-011-0229-5>.

Authors:C.B. Hurley and R.W. Oldford

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PairViz.pdf |PairViz.html✨
PairViz/json (API)

# Install 'PairViz' in R:
install.packages('PairViz', repos = c('https://cbhurley.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/cbhurley/pairviz/issues

Pkgdown site:https://cbhurley.github.io

Datasets:

On CRAN:

Conda:

5.75 score 1 stars 3 packages 42 scripts 498 downloads 44 exports 8 dependencies

Last updated 3 years agofrom:e67ce940ae. Checks:9 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 08 2025
R-4.5-winOKMar 08 2025
R-4.5-macOKMar 08 2025
R-4.5-linuxOKMar 08 2025
R-4.4-winOKMar 08 2025
R-4.4-macOKMar 08 2025
R-4.4-linuxOKMar 08 2025
R-4.3-winOKMar 08 2025
R-4.3-macOKMar 08 2025

Exports:best_orientationbipartite_graphcatpcpdesaturate_colordist2edgedn_graphedge_indexedge2disteseqeseqaetoureulerianfactor_spreadoutfind_pathgraph_composegraph_productgraph_sumguided_pcphpathsis_even_graphiterated_line_graphknn_graphkntour_addkntour_dropkspace_graphmc_plotmk_binary_graphmk_complete_graphmk_even_graphmk_hypercube_graphmk_line_graphnnodesorder_bestorder_tspoverlayCIpath_cispath_corpath_weightspcppermute_hpathsrater_spreadouttable_plotweighted_hpathszigzag

Dependencies:BiocGenericscodetoolsforeachgenericsgraphgtoolsiteratorsTSP

Correlation and scagnostic guided parallel coordinate plots

Catherine B. Hurley and R.W. Oldford

Rendered frompcp.Rmdusingknitr::rmarkdownon Mar 08 2025.

Last update: 2020-10-04
Started: 2020-10-04

Introduction to PairViz

Catherine B. Hurley and R.W. Oldford

Rendered fromPairVizIntroduction.Rmdusingknitr::rmarkdownon Mar 08 2025.

Last update: 2020-10-04
Started: 2020-10-04

Multiple comparisons with PairViz

Catherine B. Hurley and R.W. Oldford

Rendered fromMultipleComparisons.Rmdusingknitr::rmarkdownon Mar 08 2025.

Last update: 2022-01-11
Started: 2020-10-04

Readme and manuals

Help Manual

Help pageTopics
Re-orients a path to be weight-decreasingbest_orientation
Cancer Survival datacancer
Desaturates colorsdesaturate_color
Construct eulerian paths on the complete graph where nodes are integers 1..n.eseq eseqa kntour_add kntour_drop
Constructs eulerian tours on a graph.etour
~~ Methods for Function eulerian ~~eulerian eulerian,ANY-method eulerian,even_graph-method eulerian,graphNEL-method eulerian,matrix-method eulerian,numeric-method eulerian-methods
Class of graphs where all nodes have even degreeeven_graph-class graph_NEL-class is_even_graph is_even_graph,even_graph-method is_even_graph,graphNEL-method
Constructs a path from a matrix of edge weights.find_path
Guided parallel coordinate plot.guided_pcp
Hamiltonian paths on the complete graph on 1..n, using Lucas-Walecki constructions.hpaths permute_hpaths zigzag
Functions to construct graphs.bipartite_graph dn_graph graph_compose graph_product graph_sum iterated_line_graph knn_graph kspace_graph mk_binary_graph mk_hypercube_graph mk_line_graph
Multiple comparison plot.mc_plot
Constructs a complete graph.mk_complete_graph
Constructs an even graphmk_even_graph mk_even_graph,ANY-method mk_even_graph,even_graph-method mk_even_graph,graphNEL-method mk_even_graph,matrix-method mk_even_graph,numeric-method mk_even_graph-methods
Uses brute-force enumeration to find the best hamiltonian on the complete graph on 1..n.order_best
Uses tsp to find the best hamiltonian on the complete graph on 1..norder_tsp
Function to overlay confidence intervals on the current plot.overlayCI
Overview of PairViz packagePairViz-package overview
Measures the tendency of edge weights to increase.path_cor
Utility functions to manipulate pairwise information.dist2edge edge2dist edge_index nnodes path_cis path_weights
Enhanced parallel coordinate plots.catpcp pcp
Functions to prepare for categorical parallel coordinates, drawn by catpcp.factor_spreadout rater_spreadout
Plots rectangles on a gridtable_plot
Constructs weight decreasing hamiltonian pathsweighted_hpaths