HCsnip
This package is for version 3.6 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see HCsnip.
Semi-supervised adaptive-height snipping of the Hierarchical Clustering tree
Bioconductor version: 3.6
Decompose given hierarchical clustering tree into non-overlapping clusters in a semi-supervised way by using available patients follow-up information as guidance. Contains functions for snipping HC tree, various cluster quality evaluation criteria, assigning new patients to one of the two given HC trees, testing the significance of clusters with permutation argument and clusters visualization using sample's molecular entropy.
Author: Askar Obulkasim
Maintainer: Askar Obulkasim <askar703 at gmail.com>
citation("HCsnip")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HCsnip")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HCsnip")| HCsnip | R Script | |
| Reference Manual |
Details
| biocViews | Clustering, GeneExpression, Microarray, Software, aCGH |
| Version | 1.17.0 |
| In Bioconductor since | BioC 2.12 (R-3.0) (11 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10.0), survival, coin, fpc, clusterRepro, impute, randomForestSRC, sm, sigaR, Biobase |
| Imports | |
| System Requirements | |
| URL |
See More
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | HCsnip_1.17.0.tar.gz |
| Windows Binary | HCsnip_1.17.0.zip |
| Mac OS X 10.11 (El Capitan) | HCsnip_1.17.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/HCsnip |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HCsnip |
| Package Short Url | https://bioconductor.org/packages/HCsnip/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |