recipe r-recetox-xmsannotator

Annotate peak intensity table with compounds from the compounds database. A heavily modified fork of the original xMSannotator by Karan Uppal.

Homepage:

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

License:

GPL2.0

Recipe:

/r-recetox-xmsannotator/meta.yaml

Links:

doi: 10.1021/acs.analchem.6b01214

package r-recetox-xmsannotator

versions:

0.10.0-1,  0.10.0-0,  0.9.0-1,  0.9.0-0

depends bioconductor-rdisop:

depends boost-cpp:

depends r-arrow:

>=9.0.0,<10.0.0

depends r-base:

>=4.2,<4.3.0a0

depends r-biocmanager:

>=1.30.16

depends r-data.table:

>=1.14.2

depends r-dplyr:

>=1.0.0

depends r-entropy:

>=1.3.1

depends r-flashclust:

>=1.01_2

depends r-gplots:

depends r-pastecs:

>=1.3.21

depends r-plyr:

>=1.8.6

depends r-purrr:

>=0.3.4

depends r-rann:

>=2.6.1

depends r-rcdk:

>=3.5.0

depends r-rcpp:

>=0.11.0

depends r-readr:

>=2.0.2

depends r-rlist:

>=0.4.6.2

depends r-stringi:

depends r-tibble:

>=3.1.5

depends r-tidyr:

>=1.1.4

depends r-wgcna:

>=1.69

requirements:

additional platforms:

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-xmsannotator

and update with::

   mamba update r-recetox-xmsannotator

To create a new environment, run:

mamba create --name myenvname r-recetox-xmsannotator

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-xmsannotator:<tag>

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

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