recipe bioconductor-peakpanther

Peak Picking and Annotation of High Resolution Experiments

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/peakPantheR.html

License:

GPL-3

Recipe:

/bioconductor-peakpanther/meta.yaml

An automated pipeline for the detection, integration and reporting of predefined features across a large number of mass spectrometry data files. It enables the real time annotation of multiple compounds in a single file, or the parallel annotation of multiple compounds in multiple files. A graphical user interface as well as command line functions will assist in assessing the quality of annotation and update fitting parameters until a satisfactory result is obtained.

package bioconductor-peakpanther

versions:

1.16.0-0,  1.14.0-0,  1.12.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-0

depends bioconductor-msnbase:

>=2.28.0,<2.29.0

depends bioconductor-mzr:

>=2.36.0,<2.37.0

depends r-base:

>=4.3,<4.4.0a0

depends r-bslib:

depends r-doparallel:

>=1.0.11

depends r-dt:

>=0.15

depends r-foreach:

>=1.4.4

depends r-ggplot2:

>=3.3.0

depends r-gridextra:

>=2.3

depends r-lubridate:

depends r-minpack.lm:

>=1.2.1

depends r-pracma:

>=2.2.3

depends r-scales:

>=0.5.0

depends r-shiny:

>=1.0.5

depends r-shinycssloaders:

>=1.0.0

depends r-stringr:

>=1.2.0

depends r-xml:

>=3.98.1.10

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-peakpanther

and update with::

   mamba update bioconductor-peakpanther

To create a new environment, run:

mamba create --name myenvname bioconductor-peakpanther

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-peakpanther:<tag>

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

Download stats

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-peakpanther/README.html)