Package Recipe 'bioconductor-diffhic'

recipe bioconductor-diffhic

Differential Analyis of Hi-C Data

Homepage: https://bioconductor.org/packages/3.11/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

1.20.0-0, 1.18.0-0, 1.16.0-1, 1.14.0-0

Depends

bioconductor-biocgenerics >=0.34.0,<0.35.0
bioconductor-biostrings >=2.56.0,<2.57.0
bioconductor-bsgenome >=1.56.0,<1.57.0
bioconductor-csaw >=1.22.0,<1.23.0
bioconductor-edger >=3.30.0,<3.31.0
bioconductor-genomeinfodb >=1.24.0,<1.25.0
bioconductor-genomicranges >=1.40.0,<1.41.0
bioconductor-interactionset >=1.16.0,<1.17.0
bioconductor-iranges >=2.22.0,<2.23.0
bioconductor-limma >=3.44.0,<3.45.0
bioconductor-rhdf5 >=2.32.0,<2.33.0
bioconductor-rhtslib >=1.20.0,<1.21.0
bioconductor-rsamtools >=2.4.0,<2.5.0
bioconductor-rtracklayer >=1.48.0,<1.49.0
bioconductor-s4vectors >=0.26.0,<0.27.0
bioconductor-summarizedexperiment >=1.18.0,<1.19.0
bioconductor-zlibbioc >=1.34.0,<1.35.0
libblas >=3.8.0,<4.0a0
libgcc-ng >=7.3.0
liblapack >=3.8.0,<3.9.0a0
libstdcxx-ng >=7.3.0
r-base >=4.0,<4.1.0a0
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>)

Link to this page¶

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-diffhic/README.html)