recipe bioconductor-trendy

Breakpoint analysis of time-course expression data

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-trendy/meta.yaml

Trendy implements segmented (or breakpoint) regression models to estimate breakpoints which represent changes in expression for each feature/gene in high throughput data with ordered conditions.

package bioconductor-trendy

(downloads) docker_bioconductor-trendy

versions:
1.24.1-0,  1.22.0-0,  1.20.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.12.0-0,  1.10.0-0,  1.8.0-0, 

1.24.1-0,  1.22.0-0,  1.20.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.12.0-0,  1.10.0-0,  1.8.0-0,  1.6.1-0,  1.4.4-0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends r-base:

>=4.3,<4.4.0a0

depends r-dt:

depends r-gplots:

depends r-magrittr:

depends r-segmented:

depends r-shiny:

depends r-shinyfiles:

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-trendy

and update with::

   mamba update bioconductor-trendy

To create a new environment, run:

mamba create --name myenvname bioconductor-trendy

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-trendy:<tag>

(see `bioconductor-trendy/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/bioconductor-trendy/README.html)