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parallelpam  

Parallel Partitioning-Around-Medoids (PAM) for Big Sets of Data
View on CRAN: Click here


Download and install parallelpam package within the R console
Install from CRAN:
install.packages("parallelpam")

Install from Github:
library("remotes")
install_github("cran/parallelpam")

Install by package version:
library("remotes")
install_version("parallelpam", "1.4.3")



Attach the package and use:
library("parallelpam")
Maintained by
Juan Domingo
[Scholar Profile | Author Map]
First Published: 2022-11-24
Latest Update: 2023-10-09
Description:
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). . 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.
How to cite:
Juan Domingo (2022). parallelpam: Parallel Partitioning-Around-Medoids (PAM) for Big Sets of Data. R package version 1.4.3, https://cran.r-project.org/web/packages/parallelpam. Accessed 01 May. 2025.
Previous versions and publish date:
1.0.1 (2023-01-08 20:50), 1.0 (2022-11-24 13:10), 1.3 (2023-06-23 19:50), 1.4.2 (2024-07-01 17:20), 1.4 (2023-10-09 15:40)
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Complete documentation for parallelpam
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