recipe bioconductor-multisight

Multi-omics Classification, Functional Enrichment and Network Inference analysis

Homepage:

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

License:

CeCILL + file LICENSE

Recipe:

/bioconductor-multisight/meta.yaml

multiSight is an R package providing functions to analyze your omic datasets in a multi-omics manner based on Stouffer's p-value pooling and multi-block statistical methods. For each omic dataset you furnish, multiSight provides classification models with feature selection you can use as biosignature: (i) To forecast phenotypes (e.g. to diagnostic tasks, histological subtyping), (ii) To design Pathways and gene ontology enrichments (Over Representation Analysis), (iii) To build Network inference linked to PubMed querying to make assumptions easier and data-driven. Main analysis are embedded in an user-friendly graphical interface.

package bioconductor-multisight

versions:

1.7.0-0,  1.6.0-0,  1.2.0-0,  1.0.0-0

depends bioconductor-biosigner:

>=1.28.0,<1.29.0

depends bioconductor-clusterprofiler:

>=4.8.0,<4.9.0

depends bioconductor-deseq2:

>=1.40.0,<1.41.0

depends bioconductor-enrichplot:

>=1.20.0,<1.21.0

depends bioconductor-mixomics:

>=6.24.0,<6.25.0

depends bioconductor-reactomepa:

>=1.44.0,<1.45.0

depends bioconductor-rwikipathways:

>=1.20.0,<1.21.0

depends r-anylib:

depends r-base:

>=4.3,<4.4.0a0

depends r-caret:

depends r-config:

depends r-dplyr:

depends r-dt:

depends r-easypubmed:

depends r-ggnewscale:

depends r-golem:

depends r-htmltools:

depends r-igraph:

depends r-infotheo:

depends r-metap:

depends r-networkd3:

depends r-ppcor:

depends r-r6:

depends r-rmarkdown:

depends r-shiny:

depends r-shinydashboard:

depends r-stringr:

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-multisight

and update with::

   mamba update bioconductor-multisight

To create a new environment, run:

mamba create --name myenvname bioconductor-multisight

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-multisight:<tag>

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

Download stats

Link to this page

Render an badge with the following MarkDown:

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