recipe break-point-inspector

BPI uses Manta’s variant calls to re-analyse BAM files and precisely determine the location of the breaks, and applies a set of filters to remove false positives, thereby increasing the accuracy of Manta’s calls.

Homepage:

https://github.com/hartwigmedical/hmftools/tree/master/break-point-inspector

License:

MIT

Recipe:

/break-point-inspector/meta.yaml

package break-point-inspector

(downloads) docker_break-point-inspector

versions:

1.5-1,  1.5-0

depends openjdk:

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 break-point-inspector

and update with::

   mamba update break-point-inspector

To create a new environment, run:

mamba create --name myenvname break-point-inspector

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/break-point-inspector:<tag>

(see `break-point-inspector/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda 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/break-point-inspector/README.html)