recipe bioconductor-lpe

Methods for analyzing microarray data using Local Pooled Error (LPE) method

Homepage:

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

License:

LGPL

Recipe:

/bioconductor-lpe/meta.yaml

Links:

biotools: lpe, doi: 10.1093/bioinformatics/btg264

This LPE library is used to do significance analysis of microarray data with small number of replicates. It uses resampling based FDR adjustment, and gives less conservative results than traditional 'BH' or 'BY' procedures. Data accepted is raw data in txt format from MAS4, MAS5 or dChip. Data can also be supplied after normalization. LPE library is primarily used for analyzing data between two conditions. To use it for paired data, see LPEP library. For using LPE in multiple conditions, use HEM library.

package bioconductor-lpe

(downloads) docker_bioconductor-lpe

versions:
1.76.0-1,  1.76.0-0,  1.74.0-0,  1.72.0-0,  1.68.0-0,  1.66.0-0,  1.64.0-1,  1.64.0-0,  1.62.0-0, 

1.76.0-1,  1.76.0-0,  1.74.0-0,  1.72.0-0,  1.68.0-0,  1.66.0-0,  1.64.0-1,  1.64.0-0,  1.62.0-0,  1.60.0-0,  1.58.0-1,  1.58.0-0,  1.56.0-0,  1.54.0-0,  1.52.0-0

depends r-base:

>=4.3,<4.4.0a0

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-lpe

and update with::

   mamba update bioconductor-lpe

To create a new environment, run:

mamba create --name myenvname bioconductor-lpe

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-lpe:<tag>

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

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/bioconductor-lpe/README.html)