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IPCAPS  

Iterative Pruning to Capture Population Structure
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("IPCAPS", "1.1.8")



Attach the package and use:
library("IPCAPS")
Maintained by
Kridsadakorn Chaichoompu
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2018-06-14
Latest Update: 2021-01-25
Description:
An unsupervised clustering algorithm based on iterative pruning is for capturing population structure. This version supports ordinal data which can be applied directly to SNP data to identify fine-level population structure and it is built on the iterative pruning Principal Component Analysis ('ipPCA') algorithm as explained in Intarapanich et al. (2009) . The 'IPCAPS' involves an iterative process using multiple splits based on multivariate Gaussian mixture modeling of principal components and 'Expectation-Maximization' clustering as explained in Lebret et al. (2015) . In each iteration, rough clusters and outliers are also identified using the function rubikclust() from the R package 'KRIS'.
How to cite:
Kridsadakorn Chaichoompu (2018). IPCAPS: Iterative Pruning to Capture Population Structure. R package version 1.1.8, https://cran.r-project.org/web/packages/IPCAPS
Previous versions and publish date:
1.1.5 (2018-06-14 20:01)
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