recipe bamscale

BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks.

Homepage:

https://github.com/ncbi/BAMscale

Documentation:

https://github.com/ncbi/BAMscale/wiki

License:

Public Domain

Recipe:

/bamscale/meta.yaml

Links:

biotools: bamscale

BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy visualization of commonly used DNA-seq capture based methods.

package bamscale

(downloads) docker_bamscale

versions:
0.0.9-0,  0.0.5-9,  0.0.5-8,  0.0.5-7,  0.0.5-6,  0.0.5-5,  0.0.5-4,  0.0.5-3,  0.0.5-2, 

0.0.9-0,  0.0.5-9,  0.0.5-8,  0.0.5-7,  0.0.5-6,  0.0.5-5,  0.0.5-4,  0.0.5-3,  0.0.5-2,  0.0.5-1,  0.0.5-0,  0.0.3-0

depends bzip2:

>=1.0.8,<2.0a0

depends htslib:

>=1.21,<1.22.0a0

depends libbigwig:

>=0.4.7,<0.5.0a0

depends libcurl:

>=8.10.1,<9.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

requirements:

additional platforms:
linux-aarch64,  osx-arm64

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 bamscale

and update with::

   mamba update bamscale

To create a new environment, run:

mamba create --name myenvname bamscale

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/bamscale:<tag>

(see `bamscale/tags`_ for valid values for ``<tag>``)

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