recipe bioconductor-msstatsptm

Statistical Characterization of Post-translational Modifications

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-msstatsptm/meta.yaml

MSstatsPTM provides general statistical methods for quantitative characterization of post-translational modifications (PTMs). Supports DDA, DIA, SRM, and tandem mass tag (TMT) labeling. Typically, the analysis involves the quantification of PTM sites (i.e., modified residues) and their corresponding proteins, as well as the integration of the quantification results. MSstatsPTM provides functions for summarization, estimation of PTM site abundance, and detection of changes in PTMs across experimental conditions.

package bioconductor-msstatsptm

versions:

2.4.1-0,  2.2.4-0,  2.0.0-1,  2.0.0-0,  1.4.2-1,  1.4.2-0,  1.4.0-0,  1.2.2-0,  1.0.0-2, 

2.4.1-0,  2.2.4-0,  2.0.0-1,  2.0.0-0,  1.4.2-1,  1.4.2-0,  1.4.0-0,  1.2.2-0,  1.0.0-2,  1.0.0-1

depends bioconductor-biostrings:

>=2.70.0,<2.71.0

depends bioconductor-biostrings:

>=2.70.1,<2.71.0a0

depends bioconductor-msstats:

>=4.10.0,<4.11.0

depends bioconductor-msstats:

>=4.10.0,<4.11.0a0

depends bioconductor-msstatsconvert:

>=1.12.0,<1.13.0

depends bioconductor-msstatsconvert:

>=1.12.0,<1.13.0a0

depends bioconductor-msstatstmt:

>=2.10.0,<2.11.0

depends bioconductor-msstatstmt:

>=2.10.0,<2.11.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

depends r-base:

>=4.3,<4.4.0a0

depends r-checkmate:

depends r-data.table:

depends r-dplyr:

depends r-ggplot2:

depends r-ggrepel:

depends r-gridextra:

depends r-rcpp:

depends r-stringi:

depends r-stringr:

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-msstatsptm

and update with::

   mamba update bioconductor-msstatsptm

To create a new environment, run:

mamba create --name myenvname bioconductor-msstatsptm

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-msstatsptm:<tag>

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

Download stats

Link to this page

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