- recipe bioconductor-champ
Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPIC
- Homepage
- License
GPL-3
- Recipe
The package includes quality control metrics, a selection of normalization methods and novel methods to identify differentially methylated regions and to highlight copy number alterations.
- package bioconductor-champ¶
-
- Versions
2.22.0-0
,2.20.1-0
,2.18.1-1
,2.16.0-1
,2.14.0-1
,2.12.2-0
- Depends
bioconductor-bumphunter
>=1.34.0,<1.35.0
bioconductor-champdata
>=2.24.0,<2.25.0
bioconductor-dmrcate
>=2.6.0,<2.7.0
bioconductor-dnacopy
>=1.66.0,<1.67.0
bioconductor-genomicranges
>=1.44.0,<1.45.0
bioconductor-globaltest
>=5.46.0,<5.47.0
bioconductor-goseq
>=1.44.0,<1.45.0
bioconductor-illumina450probevariants.db
>=1.28.0,<1.29.0
bioconductor-illuminahumanmethylation450kmanifest
>=0.4.0,<0.5.0
bioconductor-illuminahumanmethylationepicanno.ilm10b4.hg19
>=0.6.0,<0.7.0
bioconductor-illuminahumanmethylationepicmanifest
>=0.3.0,<0.4.0
bioconductor-illuminaio
>=0.34.0,<0.35.0
bioconductor-impute
>=1.66.0,<1.67.0
bioconductor-limma
>=3.48.0,<3.49.0
bioconductor-marray
>=1.70.0,<1.71.0
bioconductor-minfi
>=1.38.0,<1.39.0
bioconductor-missmethyl
>=1.26.0,<1.27.0
bioconductor-preprocesscore
>=1.54.0,<1.55.0
bioconductor-qvalue
>=2.24.0,<2.25.0
bioconductor-sva
>=3.40.0,<3.41.0
bioconductor-watermelon
>=1.36.0,<1.37.0
r-base
>=4.1,<4.2.0a0
r-plotly
>=4.5.6
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-champ
and update with:
conda update bioconductor-champ
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-champ:<tag>
(see bioconductor-champ/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-champ/README.html)