HCsnip
Semi-supervised adaptive-height snipping of the Hierarchical Clustering tree
Bioconductor version: Release (2.12)
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 <askar.wubulikasimu at vumc.nl>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("HCsnip")
To cite this package in a publication, start R and enter:
citation("HCsnip")
Documentation
| densityR.pdf | ||
| entropy.pdf | ||
| R Script | HCsnip | |
| Rank.pdf | ||
| Reference Manual |
Details
| biocViews | Bioinformatics, Clustering, GeneExpression, Microarray, Software, aCGH |
| Version | 1.0.0 |
| In Bioconductor since | BioC 2.13 (R-2.18) |
| License | GPL (>= 2) |
| Depends | R(>= 2.10.0), survival, coin, fpc, clusterRepro, impute, randomForestSRC, sm, sigaR, Biobase |
| Imports | |
| Suggests | |
| System Requirements | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me |
Package Downloads
| Package Source | HCsnip_1.0.0.tar.gz |
| Windows Binary | HCsnip_1.0.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | HCsnip_1.0.0.tgz |
| Package Downloads Report | Download Stats |
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