Package: MapperAlgo 1.1.0

ChiChien Wang

MapperAlgo: Topological Data Analysis: Mapper Algorithm

The Mapper algorithm from Topological Data Analysis, the steps are as follows 1. Define a filter (lens) function on the data. 2. Perform clustering within each level set. 3. Generate a complex from the clustering results.

Authors:ChiChien Wang [aut, cre, trl], Paul Pearson [ctb], Daniel Muellner [ctb], Gurjeet Singh [ctb]

MapperAlgo_1.1.0.tar.gz
MapperAlgo_1.1.0.zip(r-4.7)MapperAlgo_1.1.0.zip(r-4.6)MapperAlgo_1.1.0.zip(r-4.5)
MapperAlgo_1.1.0.tgz(r-4.6-any)MapperAlgo_1.1.0.tgz(r-4.5-any)
MapperAlgo_1.1.0.tar.gz(r-4.7-any)MapperAlgo_1.1.0.tar.gz(r-4.6-any)
MapperAlgo_1.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
MapperAlgo/json (API)

# Install 'MapperAlgo' in R:

install.packages('MapperAlgo', repos = c('https://tda-r.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/tda-r/mapperalgo/issues

On CRAN:

4.83 score 8 stars 2 scripts 523 downloads 18 exports 71 dependencies

Last updated from:1b0e268403. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	165
source / vignettes	OK	215
linux-release-x86_64	OK	148
macos-release-arm64	OK	107
macos-oldrel-arm64	OK	94
windows-devel	OK	96
windows-release	OK	107
windows-oldrel	OK	93
wasm-release	OK	142

Exports:cluster_cutoff_at_first_empty_bin cover_points CPEmbedding find_best_k_for_kmeans FuzzyMapperAlgo GMapperAlgo GridSearch MapperAlgo MapperCorrelation mapperEdges MapperPlotter mapperVertices perform_clustering recursive_gaussian_split save_mapper_png simplcial_complex to_lsfi to_lsmi

Dependencies:AsioHeaders base64enc bslib cachem callr chromote cli codetools cpp11 curl data.tree digest doParallel evaluate farver fastmap fontawesome foreach fs ggplot2 glue gtable highr htmltools htmlwidgets igraph inaparc isoband iterators jquerylib jsonlite knitr kpeaks labeling later lattice lhs lifecycle magrittr MASS Matrix mclust memoise mime networkD3 nortest otel pkgconfig ppclust processx promises ps R6 rappdirs RColorBrewer Rcpp rlang rmarkdown S7 sass scales stringi tinytex vctrs viridisLite webshot2 websocket withr xfun yaml zip

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Cut the hierarchical clustering tree to define clusters	cluster_cutoff_at_first_empty_bin
Cover points based on intervals and overlap	cover_points
Conditional Probability Embedding for Mapper Nodes	CPEmbedding
Find the optimal number of clusters for k-means	find_best_k_for_kmeans
Fuzzy Mapper Algorithm (Fixed Adjacency Calculation)	FuzzyMapperAlgo
G-Mapper Algorithm	GMapperAlgo
GridSearch searched over a list of interval width and overlap, useful for visualizing the convergence of the Mapper.	GridSearch
Mapper Algorithm	MapperAlgo
Visualizes the correlation between two Mapper colorings.	MapperCorrelation
Create Mapper Edges	mapperEdges
Plot Mapper Result	MapperPlotter
Create Mapper Vertices	mapperVertices
Perform clustering within a level set	perform_clustering
Helper function to recursively split data until it is Gaussian The function now takes geometric boundaries (a, b) instead of indices	recursive_gaussian_split
GridSearch searched over a list of interval width and overlap, useful for visualizing the convergence of the Mapper.	save_mapper_png
Construct adjacency matrix of the simplicial complex	simplcial_complex
Convert level set multi-index (lsmi) to flat index (lsfi)	to_lsfi
Convert level set flat index (lsfi) to multi-index (lsmi)	to_lsmi