recipe bioconductor-epimutacions

Robust outlier identification for DNA methylation data

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/epimutacions.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-epimutacions/meta.yaml

The package includes some statistical outlier detection methods for epimutations detection in DNA methylation data. The methods included in the package are MANOVA, Multivariate linear models, isolation forest, robust mahalanobis distance, quantile and beta. The methods compare a case sample with a suspected disease against a reference panel (composed of healthy individuals) to identify epimutations in the given case sample. It also contains functions to annotate and visualize the identified epimutations.

package bioconductor-epimutacions

Versions:

1.2.0-1,  1.2.0-0

Depends:

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-annotationhub >=3.6.0,<3.7.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-biomart >=2.54.0,<2.55.0

• bioconductor-bumphunter >=1.40.0,<1.41.0

• bioconductor-ensembldb >=2.22.0,<2.23.0

• bioconductor-epimutacionsdata >=1.2.0,<1.3.0

• bioconductor-experimenthub >=2.6.0,<2.7.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicfeatures >=1.50.0,<1.51.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-gviz >=1.42.0,<1.43.0

• bioconductor-homo.sapiens >=1.3.0,<1.4.0

• bioconductor-illuminahumanmethylation450kanno.ilmn12.hg19 >=0.6.0,<0.7.0

• bioconductor-illuminahumanmethylation450kmanifest >=0.4.0,<0.5.0

• bioconductor-illuminahumanmethylationepicanno.ilm10b2.hg19 >=0.6.0,<0.7.0

• bioconductor-illuminahumanmethylationepicmanifest >=0.3.0,<0.4.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-minfi >=1.44.0,<1.45.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-txdb.hsapiens.ucsc.hg18.knowngene >=3.2.0,<3.3.0

• bioconductor-txdb.hsapiens.ucsc.hg19.knowngene >=3.2.0,<3.3.0

• bioconductor-txdb.hsapiens.ucsc.hg38.knowngene >=3.16.0,<3.17.0

• 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-ggplot2

• r-ggrepel

• r-gridextra

• r-isotree

• r-matrixstats

• r-purrr

• r-reshape2

• r-robustbase

• r-tibble

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-epimutacions

and update with:

conda update bioconductor-epimutacions

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-epimutacions:<tag>

(see bioconductor-epimutacions/tags for valid values for <tag>)

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