Package: OTclust 1.0.6

OTclust: Mean Partition, Uncertainty Assessment, Cluster Validation and Visualization Selection for Cluster Analysis

Providing mean partition for ensemble clustering by optimal transport alignment(OTA), uncertainty measures for both partition-wise and cluster-wise assessment and multiple visualization functions to show uncertainty, for instance, membership heat map and plot of covering point set. A partition refers to an overall clustering result. Jia Li, Beomseok Seo, and Lin Lin (2019) <doi:10.1002/sam.11418>. Lixiang Zhang, Lin Lin, and Jia Li (2020) <doi:10.1093/bioinformatics/btaa165>.

Authors:Lixiang Zhang [aut, cre], Beomseok Seo [aut], Lin Lin [aut], Jia Li [aut]

OTclust_1.0.6.tar.gz
OTclust_1.0.6.zip(r-4.7)OTclust_1.0.6.zip(r-4.6)OTclust_1.0.6.zip(r-4.5)
OTclust_1.0.6.tgz(r-4.6-x86_64)OTclust_1.0.6.tgz(r-4.6-arm64)OTclust_1.0.6.tgz(r-4.5-x86_64)OTclust_1.0.6.tgz(r-4.5-arm64)
OTclust_1.0.6.tar.gz(r-4.7-arm64)OTclust_1.0.6.tar.gz(r-4.7-x86_64)OTclust_1.0.6.tar.gz(r-4.6-arm64)OTclust_1.0.6.tar.gz(r-4.6-x86_64)
OTclust_1.0.6.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
OTclust/json (API)
NEWS

# Install 'OTclust' in R:

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

Bug tracker:https://github.com/lixiangzhang/otclust/issues

Uses libs:

c++– GNU Standard C++ Library v3

Datasets:

sim1 - Simulated toy data
vis_pollen - Single cell gene visualization data from Pollen's paper
YAN - Single cell gene data from Yan's paper

On CRAN:

cpp

3.70 score 6 scripts 178 downloads 14 exports 21 dependencies

Last updated from:8070f0d0ff. Checks:13 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	161
linux-devel-x86_64	OK	130
source / vignettes	OK	221
linux-release-arm64	OK	156
linux-release-x86_64	OK	138
macos-release-arm64	OK	166
macos-release-x86_64	OK	234
macos-oldrel-arm64	OK	173
macos-oldrel-x86_64	OK	272
windows-devel	OK	106
windows-release	OK	155
windows-oldrel	OK	117
wasm-release	OK	120

Exports:align clustCPS cplot CPS ensemble jaccard mplot otclust otplot perturb pplot preprocess visCPS wassDist

Dependencies:class cli cpp11 farver ggplot2 glue gtable isoband labeling lifecycle magrittr MASS R6 RColorBrewer Rcpp rlang S7 scales vctrs viridisLite withr

Quick tour of OTclust

Lixiang Zhang and Beomseok Seo

Rendered fromOTclust.Rmdusingknitr::rmarkdownon May 27 2026.

Last update: 2023-09-25
Started: 2023-09-25

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Optimal Transport Alignment	align
CPS Analysis for cluster validation..	clustCPS
Covering Point Set Plot	cplot
CPS Analysis on a collection of clustering results	CPS
Generate an ensemble of partitions.	ensemble
Jaccard similarity matrix.	jaccard
Membership Heat Map	mplot
Mean partition by optimal transport alignment.	otclust
Visualize a partition on 2 dimensional space	otplot
Perturb data by adding noise, bootstrapping or mix-up	perturb
Point-wise Uncertainty Assessment	pplot
Data preprocessing	preprocess
Simulated toy data	sim1
Single cell gene visualization data from Pollen's paper	vis_pollen
CPS Analysis on selecting visualization method.	visCPS
Wasserstein distance between two partitions.	wassDist
Single cell gene data from Yan's paper	YAN