- recipe bioconductor-spidermir
SpidermiR: An R/Bioconductor package for integrative network analysis with miRNA data
- Homepage:
https://bioconductor.org/packages/3.14/bioc/html/SpidermiR.html
- License:
GPL (>= 3)
- Recipe:
- Links:
biotools: spidermir, doi: 10.3390/ijms18020274
The aims of SpidermiR are : i) facilitate the network open-access data retrieval from GeneMania data, ii) prepare the data using the appropriate gene nomenclature, iii) integration of miRNA data in a specific network, iv) provide different standard analyses and v) allow the user to visualize the results. In more detail, the package provides multiple methods for query, prepare and download network data (GeneMania), and the integration with validated and predicted miRNA data (mirWalk, miRTarBase, miRandola, Miranda, PicTar and TargetScan). Furthermore, we also present a statistical test to identify pharmaco-mir relationships using the gene-drug interactions derived by DGIdb and MATADOR database.
- package bioconductor-spidermir¶
-
- Versions:
1.24.0-0
,1.22.0-0
,1.20.0-1
,1.20.0-0
,1.18.0-0
,1.16.0-0
,1.14.0-1
,1.12.0-0
,1.10.0-0
,1.24.0-0
,1.22.0-0
,1.20.0-1
,1.20.0-0
,1.18.0-0
,1.16.0-0
,1.14.0-1
,1.12.0-0
,1.10.0-0
,1.8.2-0
- Depends:
bioconductor-annotationdbi
>=1.56.0,<1.57.0
bioconductor-mageckflute
>=1.14.0,<1.15.0
bioconductor-mirnatap
>=1.28.0,<1.29.0
bioconductor-mirnatap.db
>=0.99.0,<0.100.0
bioconductor-org.hs.eg.db
>=3.14.0,<3.15.0
bioconductor-tcgabiolinks
>=2.22.0,<2.23.0
r-base
>=4.1,<4.2.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-spidermir
and update with:
conda update bioconductor-spidermir
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-spidermir:<tag>
(see bioconductor-spidermir/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-spidermir/README.html)