recipe bioconductor-lipidr

Data Mining and Analysis of Lipidomics Datasets

Homepage

https://bioconductor.org/packages/3.12/bioc/html/lipidr.html

License

MIT + file LICENSE

Recipe

/bioconductor-lipidr/meta.yaml

lipidr an easy-to-use R package implementing a complete workflow for downstream analysis of targeted and untargeted lipidomics data. lipidomics results can be imported into lipidr as a numerical matrix or a Skyline export, allowing integration into current analysis frameworks. Data mining of lipidomics datasets is enabled through integration with Metabolomics Workbench API. lipidr allows data inspection, normalization, univariate and multivariate analysis, displaying informative visualizations. lipidr also implements a novel Lipid Set Enrichment Analysis (LSEA), harnessing molecular information such as lipid class, total chain length and unsaturation.

package bioconductor-lipidr

Versions

2.4.0-0,  2.2.0-0,  2.0.0-0,  1.0.0-1

Depends

• bioconductor-fgsea >=1.16.0,<1.17.0

• bioconductor-limma >=3.46.0,<3.47.0

• bioconductor-ropls >=1.22.0,<1.23.0

• bioconductor-s4vectors >=0.28.0,<0.29.0

• bioconductor-summarizedexperiment >=1.20.0,<1.21.0

• r-base >=4.0,<4.1.0a0

• r-data.table

• r-dplyr

• r-forcats

• r-ggplot2

• r-imputelcmd

• r-magrittr

• r-rlang

• r-tidyr

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-lipidr

and update with:

conda update bioconductor-lipidr

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-lipidr:<tag>

(see bioconductor-lipidr/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-lipidr/README.html)