recipe bioconductor-chipcomp

Quantitative comparison of multiple ChIP-seq datasets

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/ChIPComp.html

License:

GPL-3.0-only

Recipe:

/bioconductor-chipcomp/meta.yaml

Links:

biotools: chipcomp

ChIPComp detects differentially bound sharp binding sites across multiple conditions considering matching control.

package bioconductor-chipcomp

(downloads) docker_bioconductor-chipcomp

versions:
1.32.0-11.32.0-01.30.0-01.28.0-11.28.0-01.24.0-21.24.0-11.24.0-01.22.0-0

1.32.0-11.32.0-01.30.0-01.28.0-11.28.0-01.24.0-21.24.0-11.24.0-01.22.0-01.20.0-21.20.0-11.20.0-01.18.0-01.16.0-01.14.0-11.12.0-01.10.0-01.8.0-01.6.0-01.0.0-0

depends bioconductor-biocgenerics:

>=0.48.0,<0.49.0

depends bioconductor-biocgenerics:

>=0.48.1,<0.49.0a0

depends bioconductor-bsgenome.hsapiens.ucsc.hg19:

>=1.4.0,<1.5.0

depends bioconductor-bsgenome.hsapiens.ucsc.hg19:

>=1.4.3,<1.5.0a0

depends bioconductor-bsgenome.mmusculus.ucsc.mm9:

>=1.4.0,<1.5.0

depends bioconductor-bsgenome.mmusculus.ucsc.mm9:

>=1.4.0,<1.5.0a0

depends bioconductor-genomeinfodb:

>=1.38.0,<1.39.0

depends bioconductor-genomeinfodb:

>=1.38.1,<1.39.0a0

depends bioconductor-genomicranges:

>=1.54.0,<1.55.0

depends bioconductor-genomicranges:

>=1.54.1,<1.55.0a0

depends bioconductor-iranges:

>=2.36.0,<2.37.0

depends bioconductor-iranges:

>=2.36.0,<2.37.0a0

depends bioconductor-limma:

>=3.58.0,<3.59.0

depends bioconductor-limma:

>=3.58.1,<3.59.0a0

depends bioconductor-rsamtools:

>=2.18.0,<2.19.0

depends bioconductor-rsamtools:

>=2.18.0,<2.19.0a0

depends bioconductor-rtracklayer:

>=1.62.0,<1.63.0

depends bioconductor-rtracklayer:

>=1.62.0,<1.63.0a0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-s4vectors:

>=0.40.2,<0.41.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends r-base:

>=4.3,<4.4.0a0

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-chipcomp

and update with::

   mamba update bioconductor-chipcomp

To create a new environment, run:

mamba create --name myenvname bioconductor-chipcomp

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bioconductor-chipcomp/tags`_ for valid values for ``<tag>``)

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