recipe brass

BRASS analyses one or more related BAM files of paired-end sequencing to determine potential rearrangement breakpoints.






package brass

(downloads) docker_brass



depends bedtools:

depends blat:

depends cansam:

depends exonerate:

depends libgcc:

depends perl-bio-db-hts:

depends perl-bio-featureio:

depends perl-bioperl-core:


depends perl-capture-tiny:

depends perl-file-sharedir:

depends perl-file-sharedir-install:

depends perl-graph-readwrite:

depends perl-grass:

depends perl-math-combinatorics:

depends perl-number-format:

depends perl-pcap:

depends perl-statistics-basic:

depends perl-text-diff:

depends velvet:



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 brass

and update with::

   mamba update brass

To create a new environment, run:

mamba create --name myenvname brass

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<tag>

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

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