recipe bioconductor-phantasus

Visual and interactive gene expression analysis

Homepage:

https://bioconductor.org/packages/3.17/bioc/html/phantasus.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-phantasus/meta.yaml

Phantasus is a web-application for visual and interactive gene expression analysis. Phantasus is based on Morpheus – a web-based software for heatmap visualisation and analysis, which was integrated with an R environment via OpenCPU API. Aside from basic visualization and filtering methods, R-based methods such as k-means clustering, principal component analysis or differential expression analysis with limma package are supported.

package bioconductor-phantasus

versions:

1.20.2-0,  1.18.2-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1, 

1.20.2-0,  1.18.2-0,  1.14.0-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.2.1-0

depends bioconductor-annotationdbi:

>=1.62.0,<1.63.0

depends bioconductor-biobase:

>=2.60.0,<2.61.0

depends bioconductor-deseq2:

>=1.40.0,<1.41.0

depends bioconductor-fgsea:

>=1.26.0,<1.27.0

depends bioconductor-geoquery:

>=2.68.0,<2.69.0

depends bioconductor-limma:

>=3.56.0,<3.57.0

depends bioconductor-rhdf5:

>=2.44.0,<2.45.0

depends r-assertthat:

depends r-base:

>=4.3,<4.4.0a0

depends r-ccapp:

depends r-curl:

depends r-data.table:

depends r-ggplot2:

depends r-gtable:

depends r-htmltools:

depends r-httpuv:

depends r-httr:

depends r-jsonlite:

depends r-matrix:

depends r-opencpu:

depends r-pheatmap:

depends r-protolite:

depends r-rook:

depends r-scales:

depends r-stringr:

depends r-svglite:

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-phantasus

and update with::

   mamba update bioconductor-phantasus

To create a new environment, run:

mamba create --name myenvname bioconductor-phantasus

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-phantasus:<tag>

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

Download stats

Link to this page

Render an 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-phantasus/README.html)