The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.

parallelpam: Parallel Partitioning-Around-Medoids (PAM) for Big Sets of Data

Application of the Partitioning-Around-Medoids (PAM) clustering algorithm described in Schubert, E. and Rousseeuw, P.J.: "Fast and eager k-medoids clustering: O(k) runtime improvement of the PAM, CLARA, and CLARANS algorithms." Information Systems, vol. 101, p. 101804, (2021). <doi:10.1016/j.is.2021.101804>. It uses a binary format for storing and retrieval of matrices developed for the 'jmatrix' package but the functionality of 'jmatrix' is included here, so you do not need to install it. Also, it is used by package 'scellpam', so if you have installed it, you do not need to install this package. PAM can be applied to sets of data whose dissimilarity matrix can be very big. It has been tested with up to 100.000 points. It does this with the help of the code developed for other package, 'jmatrix', which allows the matrix not to be loaded in 'R' memory (which would force it to be of double type) but it gets from disk, which allows using float (or even smaller data types). Moreover, the dissimilarity matrix is calculated in parallel if the computer has several cores so it can open many threads. The initial part of the PAM algorithm can be done with the BUILD or LAB algorithms; the BUILD algorithm has been implemented in parallel. The optimization phase implements the FastPAM1 algorithm, also in parallel. Finally, calculation of silhouette is available and also implemented in parallel.

Version: 1.4.3
Imports: Rcpp (≥ 1.0.8), memuse (≥ 4.2.1)
LinkingTo: Rcpp
Suggests: knitr, cluster
Published: 2024-07-15
DOI: 10.32614/CRAN.package.parallelpam
Author: Juan Domingo ORCID iD [aut, cre], Guillermo Ayala ORCID iD [ctb], Spanish Ministry of Science and Innovation, MCIN/AEI <doi:10.13039/501100011033> [fnd]
Maintainer: Juan Domingo <Juan.Domingo at uv.es>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: yes
Materials: NEWS
CRAN checks: parallelpam results

Documentation:

Reference manual: parallelpam.pdf
Vignettes: jmatrixpp
parallelpam

Downloads:

Package source: parallelpam_1.4.3.tar.gz
Windows binaries: r-devel: parallelpam_1.4.3.zip, r-release: parallelpam_1.4.3.zip, r-oldrel: parallelpam_1.4.3.zip
macOS binaries: r-release (arm64): parallelpam_1.4.3.tgz, r-oldrel (arm64): parallelpam_1.4.3.tgz, r-release (x86_64): parallelpam_1.4.3.tgz, r-oldrel (x86_64): parallelpam_1.4.3.tgz
Old sources: parallelpam archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=parallelpam to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.