- recipe bioconductor-famat
Functional analysis of metabolic and transcriptomic data
- Homepage:
- License:
GPL-3
- Recipe:
Famat is made to collect data about lists of genes and metabolites provided by user, and to visualize it through a Shiny app. Information collected is: - Pathways containing some of the user's genes and metabolites (obtained using a pathway enrichment analysis). - Direct interactions between user's elements inside pathways. - Information about elements (their identifiers and descriptions). - Go terms enrichment analysis performed on user's genes. The Shiny app is composed of: - information about genes, metabolites, and direct interactions between them inside pathways. - an heatmap showing which elements from the list are in pathways (pathways are structured in hierarchies). - hierarchies of enriched go terms using Molecular Function and Biological Process.
- package bioconductor-famat¶
-
- Versions:
1.8.0-0
,1.4.0-0
,1.1.1-0
,1.0.0-1
,1.0.0-0
- Depends:
bioconductor-clusterprofiler
>=4.6.0,<4.7.0
bioconductor-go.db
>=3.16.0,<3.17.0
bioconductor-keggrest
>=1.38.0,<1.39.0
bioconductor-org.hs.eg.db
>=3.16.0,<3.17.0
bioconductor-reactome.db
>=1.82.0,<1.83.0
bioconductor-rwikipathways
>=1.18.0,<1.19.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-famat
and update with:
conda update bioconductor-famat
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-famat:<tag>
(see bioconductor-famat/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-famat/README.html)