Package: MapperAlgo 1.3.0

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]

MapperAlgo_1.3.0.tar.gz
MapperAlgo_1.3.0.zip(r-4.7-any)MapperAlgo_1.3.0.zip(r-4.6-any)MapperAlgo_1.3.0.zip(r-4.5-any)
MapperAlgo_1.3.0.tgz(r-4.6-any)MapperAlgo_1.3.0.tgz(r-4.5-any)
MapperAlgo_1.3.0.tar.gz(r-4.7-any)MapperAlgo_1.3.0.tar.gz(r-4.6-any)
MapperAlgo_1.3.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
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:

4.90 score 10 stars 9 scripts 375 downloads 20 exports 88 dependencies

Last updated from:cdc824f299. Checks:5 OK. Indexed: yes.

Target	Result	Time
linux-devel	OK	213
source / vignettes	OK	254
linux-release	OK	202
windows-devel	OK	98
windows-release	OK	88

Exports:cluster_cutoff_at_first_empty_bin cover_points CPEmbedding find_best_k_for_kmeans FuzzyMapperAlgo GMapperAlgo GridSearch mapper_adjacency MapperAlgo MapperCorrelation mapperEdges MapperPlotter MapperPlotter3D mapperVertices perform_clustering perform_clustering_mlr3 recursive_gaussian_split save_mapper_png to_lsfi to_lsmi

Dependencies:AsioHeaders askpass base64enc bslib cachem callr chromote cli codetools cpp11 crosstalk curl data.table data.tree digest doParallel dplyr evaluate farver fastmap fontawesome foreach fs generics ggplot2 glue gtable highr htmltools htmlwidgets httr igraph inaparc isoband iterators jquerylib jsonlite knitr kpeaks labeling later lattice lazyeval lhs lifecycle magrittr MASS Matrix mclust memoise mime networkD3 nortest openssl otel pillar pkgconfig plotly ppclust processx promises ps purrr R6 rappdirs RColorBrewer Rcpp rlang rmarkdown S7 sass scales stringi stringr sys tibble tidyr tidyselect tinytex utf8 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
Construct adjacency matrix	mapper_adjacency
Mapper Algorithm	MapperAlgo
Visualizes the correlation between two Mapper colorings.	MapperCorrelation
Create Mapper Edges	mapperEdges
Plot Mapper Result	MapperPlotter
Plot Mapper Result in Interactive 3D	MapperPlotter3D
Create Mapper Vertices	mapperVertices
Perform clustering within a level set	perform_clustering
Perform clustering within a level set using an mlr3cluster Learner	perform_clustering_mlr3
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
Convert level set multi-index (lsmi) to flat index (lsfi)	to_lsfi
Convert level set flat index (lsfi) to multi-index (lsmi)	to_lsmi