recipe r-recetox-aplcms

apLCMS is a software which generates a feature table from a batch of LC/MS spectra. A modified fork of the original apLCMS by Tianwei Yu.

Homepage:

https://github.com/RECETOX/recetox-aplcms

Documentation:

https://mypage.cuhk.edu.cn/academics/yutianwei/apLCMS

License:

GPL-2.0-or-later

Recipe:

/r-recetox-aplcms/meta.yaml

Links:

doi: 10.1093/bioinformatics/btp291, doi: 10.1186/1471-2105-11-559, doi: 10.1021/pr301053d, doi: 10.1093/bioinformatics/btu430, doi: 10.1038/s41598-020-70850-0

package r-recetox-aplcms

versions:

0.13.4-0,  0.13.3-0,  0.13.2-0,  0.13.0-0,  0.12.0-1,  0.12.0-0,  0.11.0-1,  0.11.0-0,  0.10.3-2, 

0.13.4-0,  0.13.3-0,  0.13.2-0,  0.13.0-0,  0.12.0-1,  0.12.0-0,  0.11.0-1,  0.11.0-0,  0.10.3-2,  0.10.3-0,  0.10.2-0,  0.10.1-1,  0.10.1-0,  0.10.0-0,  0.9.4-1,  0.9.4-0,  0.9.3-0,  0.9.2-0,  0-0

depends bioconductor-mzr:

2.36.0

depends r-arrow:

depends r-base:

>=4.3,<4.4.0a0

depends r-doparallel:

depends r-dplyr:

depends r-foreach:

depends r-iterators:

depends r-mass:

depends r-plyr:

depends r-rcpp:

depends r-snow:

depends r-splines2:

depends r-stringi:

depends r-stringr:

depends r-tibble:

depends r-tidyr:

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 r-recetox-aplcms

and update with::

   mamba update r-recetox-aplcms

To create a new environment, run:

mamba create --name myenvname r-recetox-aplcms

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/r-recetox-aplcms:<tag>

(see `r-recetox-aplcms/tags`_ for valid values for ``<tag>``)

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