- recipe r-statvisual
Visualization functions in the applications of translational medicine (TM) and biomarker (BM) development to compare groups by statistically visualizing data and/or results of analyses, such as visualizing data by displaying in one figure different groups' histograms, boxplots, densities, scatter plots, error-bar plots, or trajectory plots, by displaying scatter plots of top principal components or dendrograms with data points colored based on group information, or visualizing volcano plots to check the results of whole genome analyses for gene differential expression.
- Homepage:
- License:
GPL3 / GPL (>= 2)
- Recipe:
- package r-statvisual¶
- Versions:
1.2.1-6,1.2.1-5,1.2.1-4,1.2.1-3,1.2.1-2,1.2.1-1,1.2.1-0,1.1.9-0,1.1.8-0- Depends:
on bioconductor-biobase
on bioconductor-limma
on bioconductor-pvca
on r-base
>=4.4,<4.5.0a0on r-dplyr
on r-factoextra
on r-forestplot
on r-gbm
on r-ggally
on r-ggdendro
on r-ggfortify
on r-ggplot2
on r-ggrepel
on r-glmnet
on r-gplots
on r-gridextra
on r-knitr
on r-magrittr
on r-multigroup
on r-pheatmap
on r-proc
on r-randomforest
on r-rcolorbrewer
on r-reshape2
on r-rmarkdown
on r-rpart.plot
on r-tibble
on r-tidyverse
- 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 r-statvisual
to add into an existing workspace instead, run:
pixi add r-statvisual
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 r-statvisual
Alternatively, to install into a new environment, run:
conda create -n envname r-statvisual
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/r-statvisual:<tag>
(see r-statvisual/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/r-statvisual/README.html)
