recipe tpp

The Trans-Proteomic Pipeline (TPP) is a collection of integrated tools for MS/MS proteomics developed at the Seattle Proteome Center. The Bioconda package includes the command-line versions of the TPP toolset. These programs include tools for validation (PeptideProphet, iProphet, ProteinProphet, Mayu) and quantification (XPRESS, ASAPRatio, Libra) as well as a number of parsers and converters (Out2XML, Mascot2XML, Tandem2XML, etc).

Homepage:

http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP

License:

GPL v. 2.0 and LGPL

Recipe:

/tpp/meta.yaml

package tpp

(downloads) docker_tpp

versions:

5.0.0-0

depends bzip2:

1.0*

depends hardklor:

depends libgcc:

<=4.9

depends perl:

5.22.0*

depends perl-findbin-libs:

depends perl-xml-parser:

depends zlib:

1.2.11*

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 tpp

and update with::

   mamba update tpp

To create a new environment, run:

mamba create --name myenvname tpp

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/tpp:<tag>

(see `tpp/tags`_ for valid values for ``<tag>``)

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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/tpp/README.html)