supraHex
This is the development version of supraHex; for the stable release version, see supraHex.
supraHex: a supra-hexagonal map for analysing tabular omics data
Bioconductor version: Development (3.18)
A supra-hexagonal map is a giant hexagon on a 2-dimensional grid seamlessly consisting of smaller hexagons. It is supposed to train, analyse and visualise a high-dimensional omics input data. The supraHex is able to carry out gene clustering/meta-clustering and sample correlation, plus intuitive visualisations to facilitate exploratory analysis. More importantly, it allows for overlaying additional data onto the trained map to explore relations between input and additional data. So with supraHex, it is also possible to carry out multilayer omics data comparisons. Newly added utilities are advanced heatmap visualisation and tree-based analysis of sample relationships. Uniquely to this package, users can ultrafastly understand any tabular omics data, both scientifically and artistically, especially in a sample-specific fashion but without loss of information on large genes.
Author: Hai Fang and Julian Gough
Maintainer: Hai Fang <hfang at well.ox.ac.uk>
citation("supraHex")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("supraHex")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("supraHex")| supraHex User Manual | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Clustering, GeneExpression, Software, Visualization |
| Version | 1.39.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (10 years) |
| License | GPL-2 |
| Depends | R (>= 3.6), hexbin |
| Imports | ape, MASS, grDevices, graphics, stats, readr, tibble, tidyr, dplyr, stringr, purrr, magrittr, igraph, methods |
| Linking To | |
| Suggests | |
| System Requirements | |
| Enhances | |
| URL | http://suprahex.r-forge.r-project.org |
See More
| Depends On Me | dnet |
| Imports Me | Pi |
| Suggests Me | OmnipathR, TCGAbiolinks |
| Links To Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | supraHex_1.39.0.tar.gz |
| Windows Binary | supraHex_1.39.0.zip |
| macOS Binary (x86_64) | supraHex_1.39.0.tgz |
| macOS Binary (arm64) | supraHex_1.39.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/supraHex |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/supraHex |
| Bioc Package Browser | https://code.bioconductor.org/browse/supraHex/ |
| Package Short Url | https://bioconductor.org/packages/supraHex/ |
| Package Downloads Report | Download Stats |