recipe bioconductor-ptairdata

PTR-TOF-MS volatolomics raw datasets from exhaled air and cell culture headspace

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/ptairData.html

License:

GPL-3

Recipe:

/bioconductor-ptairdata/meta.yaml

The package ptairData contains two raw datasets from Proton-Transfer-Reaction Time-of-Flight mass spectrometer acquisitions (PTR-TOF-MS), in the HDF5 format. One from the exhaled air of two volunteer healthy individuals with three replicates, and one from the cell culture headspace from two mycobacteria species and one control (culture medium only) with two replicates. Those datasets are used in the examples and in the vignette of the ptairMS package (PTR-TOF-MS data pre-processing). There are also used to gererate the ptrSet in the ptairMS data : exhaledPtrset and mycobacteriaSet

package bioconductor-ptairdata

(downloads) docker_bioconductor-ptairdata

versions:

1.10.0-0,  1.8.0-0,  1.5.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

depends bioconductor-data-packages:

>=20231203

depends bioconductor-rhdf5:

>=2.46.0,<2.47.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

depends r-signal:

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-ptairdata

and update with::

   mamba update bioconductor-ptairdata

To create a new environment, run:

mamba create --name myenvname bioconductor-ptairdata

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bioconductor-ptairdata/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda 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-ptairdata/README.html)