recipe beacon2-ri-tools

Script to parse a VCF having SnepEff/SnpSift annotations






Beacon v2 Reference Implementation (Data ingestion tools)

package beacon2-ri-tools

(downloads) docker_beacon2-ri-tools



depends json_schema_validator:

depends perl:


depends perl:

>=5.32.1,<6.0a0 *_perl5

depends perl-app-cpanminus:

depends perl-autodie:

depends perl-data-dumper:

depends perl-data-structure-util:

depends perl-date-calc:

depends perl-encode:

depends perl-excel-writer-xlsx:

depends perl-file-which:

depends perl-json-validator:

depends perl-json-xs:

depends perl-list-moreutils:

depends perl-minion:

depends perl-minion-backend-sqlite:

depends perl-mojolicious:

depends perl-path-tiny:

depends perl-perldoc:

depends perl-perlio-gzip:

depends perl-text-csv_xs:

depends perl-text-unidecode:

depends perl-yaml-libyaml:



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 beacon2-ri-tools

and update with::

   mamba update beacon2-ri-tools

To create a new environment, run:

mamba create --name myenvname beacon2-ri-tools

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 `beacon2-ri-tools/tags`_ for valid values for ``<tag>``)

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