- recipe bioconductor-clipper
Gene Set Analysis Exploiting Pathway Topology
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/clipper.html
- License:
AGPL-3
- Recipe:
Implements topological gene set analysis using a two-step empirical approach. It exploits graph decomposition theory to create a junction tree and reconstruct the most relevant signal path. In the first step clipper selects significant pathways according to statistical tests on the means and the concentration matrices of the graphs derived from pathway topologies. Then, it "clips" the whole pathway identifying the signal paths having the greatest association with a specific phenotype.
- package bioconductor-clipper¶
-
- Versions:
1.38.0-1
,1.38.0-0
,1.34.0-2
,1.34.0-1
,1.34.0-0
,1.32.0-0
,1.30.0-1
,1.30.0-0
,1.28.0-0
,1.38.0-1
,1.38.0-0
,1.34.0-2
,1.34.0-1
,1.34.0-0
,1.32.0-0
,1.30.0-1
,1.30.0-0
,1.28.0-0
,1.26.0-0
,1.24.0-1
,1.22.0-0
- Depends:
bioconductor-biobase
>=2.58.0,<2.59.0
bioconductor-graph
>=1.76.0,<1.77.0
bioconductor-kegggraph
>=1.58.0,<1.59.0
bioconductor-qpgraph
>=2.32.0,<2.33.0
bioconductor-rbgl
>=1.74.0,<1.75.0
libblas
>=3.9.0,<4.0a0
libgcc-ng
>=12
liblapack
>=3.9.0,<4.0a0
libstdcxx-ng
>=12
r-base
>=4.2,<4.3.0a0
r-grbase
>=1.6.6
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-clipper
and update with:
conda update bioconductor-clipper
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-clipper:<tag>
(see bioconductor-clipper/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-clipper/README.html)