IPCAPS
Iterative Pruning to Capture Population Structure
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) doi:10.1186/1471-2105-10-382. 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) doi:10.18637/jss.v067.i06. In each iteration, rough clusters and outliers are also identified using the function rubikclust() from the R package 'KRIS'.
- Version1.1.8
- R versionunknown
- LicenseGPL-3
- Needs compilation?No
- IPCAPS citation info
- Last release01/25/2021
Documentation
Team
Kridsadakorn Chaichoompu
Fentaw Abegaz
Show author detailsRolesAuthorKristel Van Steen
Show author detailsRolesAuthorSissades Tongsima
Show author detailsRolesAuthorPhilip Shaw
Show author detailsRolesAuthorAnavaj Sakuntabhai
Show author detailsRolesAuthorLuisa Pereira
Show author detailsRolesAuthor
Insights
Last 30 days
This package has been downloaded 432 times in the last 30 days. Enough downloads to make a small wave in the niche community. The curiosity is spreading! The following heatmap shows the distribution of downloads per day. Yesterday, it was downloaded 9 times.
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Last 365 days
This package has been downloaded 6,155 times in the last 365 days. Impressive! The kind of number that makes colleagues ask, 'How did you do it?' The day with the most downloads was Sep 11, 2024 with 58 downloads.
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Dependencies
- Imports8 packages
- Suggests1 package