Infrastructure for Ordering Objects Using Seriation

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Documentation for package ‘seriation’ version 1.5.7

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B C D G H I L M O P R S T U V W Z misc

-- B --

bertinplot Plot a Bertin Matrix
bertin_cut_line Plot a Bertin Matrix
bluered Different Useful Color Palettes
blues Different Useful Color Palettes

-- C --

c.ser_permutation Class ser_permutation - A Collection of Permutation Vectors for Seriation
c.ser_permutation_vector Class ser_permutation_vector - A Single Permutation Vector for Seriation
Chameleon 2D Data Sets used for the CHAMELEON Clustering Algorithm
chameleon 2D Data Sets used for the CHAMELEON Clustering Algorithm
chameleon_ds4 2D Data Sets used for the CHAMELEON Clustering Algorithm
chameleon_ds5 2D Data Sets used for the CHAMELEON Clustering Algorithm
chameleon_ds7 2D Data Sets used for the CHAMELEON Clustering Algorithm
chameleon_ds8 2D Data Sets used for the CHAMELEON Clustering Algorithm
colors Different Useful Color Palettes
create_lines_data Create Simulated Data for Seriation Evaluation
create_ordered_data Create Simulated Data for Seriation Evaluation
criterion Criterion for a Loss/Merit Function for Data Given a Permutation
criterion.array Criterion for a Loss/Merit Function for Data Given a Permutation
criterion.data.frame Criterion for a Loss/Merit Function for Data Given a Permutation
criterion.dist Criterion for a Loss/Merit Function for Data Given a Permutation
criterion.matrix Criterion for a Loss/Merit Function for Data Given a Permutation
criterion.table Criterion for a Loss/Merit Function for Data Given a Permutation

-- D --

DendSer Register Seriation Methods from Package DendSer
dendser Register Seriation Methods from Package DendSer
dissplot Dissimilarity Plot

-- G --

GA Register a Genetic Algorithm Seriation Method
ga Register a Genetic Algorithm Seriation Method
gaperm_mixedMutation Register a Genetic Algorithm Seriation Method
get_config Fit an Unidimensional Scaling for a Seriation Order
get_criterion_method Registry for Criterion Methods
get_method Class ser_permutation_vector - A Single Permutation Vector for Seriation
get_order Extracting Order Information from a Permutation Object
get_order.dendrogram Extracting Order Information from a Permutation Object
get_order.hclust Extracting Order Information from a Permutation Object
get_order.integer Extracting Order Information from a Permutation Object
get_order.numeric Extracting Order Information from a Permutation Object
get_order.ser_permutation Extracting Order Information from a Permutation Object
get_order.ser_permutation_vector Extracting Order Information from a Permutation Object
get_permutation_matrix Extracting Order Information from a Permutation Object
get_rank Extracting Order Information from a Permutation Object
get_seriation_method Registry for Seriation Methods
ggbertinplot Plot a Bertin Matrix
ggdissplot Dissimilarity Plot
gghmap Plot Heat Map Reordered Using Seriation
ggiVAT Visual Analysis for Cluster Tendency Assessment (VAT/iVAT)
ggpimage Permutation Image Plot
ggpimage.dist Permutation Image Plot
ggpimage.matrix Permutation Image Plot
ggVAT Visual Analysis for Cluster Tendency Assessment (VAT/iVAT)
grays Different Useful Color Palettes
greenred Different Useful Color Palettes
greens Different Useful Color Palettes
greys Different Useful Color Palettes

-- H --

hmap Plot Heat Map Reordered Using Seriation

-- I --

Irish Irish Referendum Data Set
is.robinson Create and Recognize Robinson and Pre-Robinson Matrices
iVAT Visual Analysis for Cluster Tendency Assessment (VAT/iVAT)

-- L --

length.ser_permutation_vector Class ser_permutation_vector - A Single Permutation Vector for Seriation
list_criterion_methods Registry for Criterion Methods
list_seriation_methods Registry for Seriation Methods
LLE Locally Linear Embedding (LLE)
lle Locally Linear Embedding (LLE)
LS Neighborhood functions for Seriation Method SA
LS_insert Neighborhood functions for Seriation Method SA
LS_mixed Neighborhood functions for Seriation Method SA
LS_reverse Neighborhood functions for Seriation Method SA
LS_swap Neighborhood functions for Seriation Method SA

-- M --

MDS_stress Fit an Unidimensional Scaling for a Seriation Order
Munsingen Hodson's Munsingen Data Set

-- O --

OPTICS Register Seriation Based on OPTICS
optics Register Seriation Based on OPTICS

-- P --

palette Different Useful Color Palettes
panel.bars Plot a Bertin Matrix
panel.blocks Plot a Bertin Matrix
panel.circles Plot a Bertin Matrix
panel.lines Plot a Bertin Matrix
panel.rectangles Plot a Bertin Matrix
panel.squares Plot a Bertin Matrix
panel.tiles Plot a Bertin Matrix
path_dist Visual Analysis for Cluster Tendency Assessment (VAT/iVAT)
permutation_matrix2vector Conversion Between Permutation Vector and Permutation Matrix
permutation_vector2matrix Conversion Between Permutation Vector and Permutation Matrix
permute Permute the Order in Various Objects
permute.array Permute the Order in Various Objects
permute.character Permute the Order in Various Objects
permute.data.frame Permute the Order in Various Objects
permute.dendrogram Permute the Order in Various Objects
permute.dist Permute the Order in Various Objects
permute.hclust Permute the Order in Various Objects
permute.list Permute the Order in Various Objects
permute.matrix Permute the Order in Various Objects
permute.numeric Permute the Order in Various Objects
permute.table Permute the Order in Various Objects
pimage Permutation Image Plot
pimage.data.frame Permutation Image Plot
pimage.dist Permutation Image Plot
pimage.matrix Permutation Image Plot
pimage.table Permutation Image Plot
plot.reordered_cluster_dissimilarity_matrix Dissimilarity Plot
plot_config Fit an Unidimensional Scaling for a Seriation Order
print.criterion_method Registry for Criterion Methods
print.reordered_cluster_dissimilarity_matrix Dissimilarity Plot
print.seriation_method Registry for Seriation Methods
print.ser_permutation Class ser_permutation - A Collection of Permutation Vectors for Seriation
print.ser_permutation_vector Class ser_permutation_vector - A Single Permutation Vector for Seriation
Psych24 Results of 24 Psychological Test for 8th Grade Students

-- R --

random.robinson Create and Recognize Robinson and Pre-Robinson Matrices
reds Different Useful Color Palettes
registersmacof Register Seriation Methods from Package smacof
register_DendSer Register Seriation Methods from Package DendSer
register_GA Register a Genetic Algorithm Seriation Method
register_optics Register Seriation Based on OPTICS
register_smacof Register Seriation Methods from Package smacof
register_tsne Register Seriation Based on 1D t-SNE
register_umap Register Seriation Based on 1D UMAP
registry_criterion Registry for Criterion Methods
registry_for_criterion_methods Registry for Criterion Methods
registry_for_seriation_methods Registry for Seriation Methods
registry_seriate Registry for Seriation Methods
reorder Reorder Dendrograms using Optimal Leaf Ordering
reorder.hclust Reorder Dendrograms using Optimal Leaf Ordering
rev.ser_permutation_vector Class ser_permutation_vector - A Single Permutation Vector for Seriation
Robinson Create and Recognize Robinson and Pre-Robinson Matrices
robinson Create and Recognize Robinson and Pre-Robinson Matrices

-- S --

seriate Seriate Dissimilarity Matrices, Matrices or Arrays
seriate.array Seriate Dissimilarity Matrices, Matrices or Arrays
seriate.data.frame Seriate Dissimilarity Matrices, Matrices or Arrays
seriate.dist Seriate Dissimilarity Matrices, Matrices or Arrays
seriate.matrix Seriate Dissimilarity Matrices, Matrices or Arrays
seriate.table Seriate Dissimilarity Matrices, Matrices or Arrays
seriate_best Best Seriation
seriate_improve Best Seriation
seriate_rep Best Seriation
ser_align Dissimilarities and Correlations Between Seriation Orders
ser_cor Dissimilarities and Correlations Between Seriation Orders
ser_dist Dissimilarities and Correlations Between Seriation Orders
ser_permutation Class ser_permutation - A Collection of Permutation Vectors for Seriation
ser_permutation_vector Class ser_permutation_vector - A Single Permutation Vector for Seriation
set_criterion_method Registry for Criterion Methods
set_seriation_method Registry for Seriation Methods
smacof Register Seriation Methods from Package smacof
summary.ser_permutation Class ser_permutation - A Collection of Permutation Vectors for Seriation
summary.ser_permutation_vector Class ser_permutation_vector - A Single Permutation Vector for Seriation
SupremeCourt Voting Patterns in the Second Rehnquist U.S. Supreme Court

-- T --

Townships Bertin's Characteristics of Townships
tSNE Register Seriation Based on 1D t-SNE
tsne Register Seriation Based on 1D t-SNE

-- U --

umap Register Seriation Based on 1D UMAP
uniscale Fit an Unidimensional Scaling for a Seriation Order

-- V --

VAT Visual Analysis for Cluster Tendency Assessment (VAT/iVAT)

-- W --

Wood Gene Expression Data for Wood Formation in Poplar Trees

-- Z --

Zoo Zoo Data Set

-- misc --

[.ser_permutation Class ser_permutation - A Collection of Permutation Vectors for Seriation