- recipe bioconductor-suprahex
supraHex: a supra-hexagonal map for analysing tabular omics data
- Homepage:
https://bioconductor.org/packages/3.18/bioc/html/supraHex.html
- License:
GPL-2
- Recipe:
- Links:
biotools: suprahex
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.
- package bioconductor-suprahex¶
- Versions:
1.40.0-0,1.38.0-0,1.36.0-0,1.32.0-0,1.30.0-0,1.28.1-0,1.28.0-0,1.26.0-0,1.24.0-0,1.40.0-0,1.38.0-0,1.36.0-0,1.32.0-0,1.30.0-0,1.28.1-0,1.28.0-0,1.26.0-0,1.24.0-0,1.22.0-1,1.22.0-0,1.20.0-0,1.18.0-0,1.16.0-0,1.14.0-0- Depends:
on r-ape
on r-base
>=4.3,<4.4.0a0on r-dplyr
on r-hexbin
on r-igraph
on r-magrittr
on r-mass
on r-purrr
on r-readr
on r-stringr
on r-tibble
on r-tidyr
- Additional platforms:
Installation¶
You need a conda-compatible package manager (currently either pixi, conda, or micromamba) and the Bioconda channel already activated (see Usage). Below, we show how to install with either pixi or conda (for micromamba and mamba, commands are essentially the same as with conda).
Pixi¶
With pixi installed and the Bioconda channel set up (see Usage), to install globally, run:
pixi global install bioconductor-suprahex
to add into an existing workspace instead, run:
pixi add bioconductor-suprahex
In the latter case, make sure to first add bioconda and conda-forge to the channels considered by the workspace:
pixi workspace channel add conda-forge
pixi workspace channel add bioconda
Conda¶
With conda installed and the Bioconda channel set up (see Usage), to install into an existing and activated environment, run:
conda install bioconductor-suprahex
Alternatively, to install into a new environment, run:
conda create -n envname bioconductor-suprahex
with envname being the name of the desired environment.
Container¶
Alternatively, every Bioconda package is available as a container image for usage with your preferred container runtime. For e.g. docker, run:
docker pull quay.io/biocontainers/bioconductor-suprahex:<tag>
(see bioconductor-suprahex/tags for valid values for <tag>).
Integrated deployment¶
Finally, note that many scientific workflow management systems directly integrate both conda and container based software deployment. Thus, workflow steps can be often directly annotated to use the package, leading to automatic deployment by the respective workflow management system, thereby improving reproducibility and transparency. Check the documentation of your workflow management system to find out about the integration.
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-suprahex/README.html)
