- recipe bioconductor-podkat
Position-Dependent Kernel Association Test
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/podkat.html
- License
GPL (>= 2)
- Recipe
- Links
biotools: podkat, doi: 10.1038/nmeth.3252
This package provides an association test that is capable of dealing with very rare and even private variants. This is accomplished by a kernel-based approach that takes the positions of the variants into account. The test can be used for pre-processed matrix data, but also directly for variant data stored in VCF files. Association testing can be performed whole-genome, whole-exome, or restricted to pre-defined regions of interest. The test is complemented by tools for analyzing and visualizing the results.
- package bioconductor-podkat¶
-
- Versions
1.26.0-1
,1.26.0-0
,1.24.0-0
,1.22.0-1
,1.22.0-0
,1.20.0-0
,1.18.0-0
,1.16.0-1
,1.14.0-1
,1.26.0-1
,1.26.0-0
,1.24.0-0
,1.22.0-1
,1.22.0-0
,1.20.0-0
,1.18.0-0
,1.16.0-1
,1.14.0-1
,1.14.0-0
,1.12.0-0
,1.10.0-0
,1.8.0-0
- Depends
bioconductor-biobase
>=2.54.0,<2.55.0
bioconductor-biocgenerics
>=0.40.0,<0.41.0
bioconductor-biostrings
>=2.62.0,<2.63.0
bioconductor-bsgenome
>=1.62.0,<1.63.0
bioconductor-genomeinfodb
>=1.30.0,<1.31.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rhtslib
>=1.26.0,<1.27.0
bioconductor-rsamtools
>=2.10.0,<2.11.0
libblas
>=3.8.0,<4.0a0
libgcc-ng
>=10.3.0
liblapack
>=3.8.0,<4.0a0
libstdcxx-ng
>=10.3.0
r-base
>=4.1,<4.2.0a0
r-rcpp
>=0.11.1
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-podkat
and update with:
conda update bioconductor-podkat
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-podkat:<tag>
(see bioconductor-podkat/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-podkat/README.html)