recipe bioconductor-diffhic

Differential Analyis of Hi-C Data

Homepage

https://bioconductor.org/packages/3.14/bioc/html/diffHic.html

License

GPL-3

Recipe

/bioconductor-diffhic/meta.yaml

Detects differential interactions across biological conditions in a Hi-C experiment. Methods are provided for read alignment and data pre-processing into interaction counts. Statistical analysis is based on edgeR and supports normalization and filtering. Several visualization options are also available.

package bioconductor-diffhic

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,  1.14.0-0

Depends

• 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-csaw >=1.28.0,<1.29.0

• bioconductor-edger >=3.36.0,<3.37.0

• bioconductor-genomeinfodb >=1.30.0,<1.31.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-interactionset >=1.22.0,<1.23.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-limma >=3.50.0,<3.51.0

• bioconductor-rhdf5 >=2.38.0,<2.39.0

• bioconductor-rhtslib >=1.26.0,<1.27.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-rtracklayer >=1.54.0,<1.55.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• bioconductor-zlibbioc >=1.40.0,<1.41.0

• 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-locfit

• r-rcpp

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-diffhic

and update with:

conda update bioconductor-diffhic

or use the docker container:

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

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

Download stats

Link to this page

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