recipe polystest

Interactive tool for statistical testing, data browsing and interactive visualization of quantitative omics data

Homepage:

https://bitbucket.org/veitveit/polystest/src/master/

License:

GPL / GPL (>=2)

Recipe:

/polystest/meta.yaml

Links:

biotools: polystest, doi: 10.1074/mcp.RA119.001777

PolySTest is a web service (shiny app) and command-line tool for statistical testing, data browsing and interactive visualization of quantitative omics data. It contains multiple statistical tests and a new method to incorporate missing values.

package polystest

(downloads) docker_polystest

versions:

1.3.4-0,  1.3.2-0,  1.2.2-0,  1.2-0,  1.1-2,  1.01-1,  1.1-1,  1.01-0,  1.1-0

depends bioconductor-limma:

depends bioconductor-qvalue:

depends r-base:

depends r-circlize:

depends r-dt:

depends r-fdrtool:

depends r-gplots:

depends r-heatmaply:

depends r-knitr:

depends r-matrixstats:

depends r-readxl:

depends r-shiny:

depends r-shinybs:

depends r-shinydashboard:

depends r-upsetr:

depends r-yaml:

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 polystest

and update with::

   mamba update polystest

To create a new environment, run:

mamba create --name myenvname polystest

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/polystest:<tag>

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

Notes

PolySTest is available as shiny app via run_polystest_app.R or as command-line tool: runPolySTestCLI.R

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/polystest/README.html)