recipe bioconductor-isocorrector

Correction for natural isotope abundance and tracer purity in MS and MS/MS data from stable isotope labeling experiments

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-isocorrector/meta.yaml

IsoCorrectoR performs the correction of mass spectrometry data from stable isotope labeling/tracing metabolomics experiments with regard to natural isotope abundance and tracer impurity. Data from both MS and MS/MS measurements can be corrected (with any tracer isotope: 13C, 15N, 18O…), as well as ultra-high resolution MS data from multiple-tracer experiments (e.g. 13C and 15N used simultaneously). See the Bioconductor package IsoCorrectoRGUI for a graphical user interface to IsoCorrectoR. NOTE: With R version 4.0.0, writing correction results to Excel files may currently not work on Windows. However, writing results to csv works as before.

package bioconductor-isocorrector

(downloads) docker_bioconductor-isocorrector

versions:
1.20.0-0,  1.18.0-0,  1.16.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-0, 

1.20.0-0,  1.18.0-0,  1.16.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.1-0,  1.2.0-0,  1.0.5-0

depends r-base:

>=4.3,<4.4.0a0

depends r-dplyr:

depends r-magrittr:

depends r-pracma:

depends r-quadprog:

depends r-readr:

depends r-readxl:

depends r-stringr:

depends r-tibble:

depends r-writexls:

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-isocorrector

and update with::

   mamba update bioconductor-isocorrector

To create a new environment, run:

mamba create --name myenvname bioconductor-isocorrector

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-isocorrector:<tag>

(see `bioconductor-isocorrector/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-isocorrector/README.html)