recipe arb-bio

ARB 6 Sequence Analysis Suite

Homepage:

http://www.arb-home.de

Documentation:

http://www.arb-home.de/documentation.html

Developer docs:

http://bugs.arb-home.de/

License:

ARB

Recipe:

/arb-bio/meta.yaml

Links:

biotools: arb, doi: 10.1002/9781118010518.ch46

"ARB (ARBor, Latin: tree): A software environment for maintaining databases of molecular sequences and additional information, and for analyzing the sequence data, with emphasis on phylogeny reconstruction.

The programs have primarily been developed for ribosomal ribonucleic acid (rRNA) sequences and, therefore, contain special tools for alignment and analysis of these structures. However, other molecular sequence data can also be handled. Protein gene sequences and predicted protein primary structures as well as protein secondary structures can be stored in the same database.

The ARB package is designed for graphical user interface. Program control and data display are available in a hierarchical set of windows and subwindows. The majority of operations can be controlled using the mouse for moving the pointer and the left mouse button for initiating and performing operations"

package arb-bio

versions:

6.0.6-8,  6.0.6-7,  6.0.6-6,  6.0.6-5,  6.0.6-4,  6.0.6-3,  6.0.6-1,  6.0.6-0

depends arb-bio-tools:

6.0.6 haa8b8d8_8

depends fasttree:

depends fig2dev:

depends gettext:

>=0.19.8.1,<1.0a0

depends glib:

>=2.58.2,<3.0a0

depends gnuplot:

depends libgcc-ng:

>=7.3.0

depends libpng:

>=1.6.35,<1.7.0a0

depends libstdcxx-ng:

>=7.3.0

depends libtiff:

>=4.0.9,<5.0a0

depends libxslt:

>=1.1.32,<2.0a0

depends mafft:

depends mrbayes:

depends muscle:

depends openmotif:

depends perl:

>=5.26.2,<5.26.3.0a0

depends phylip:

depends phyml:

3.2.0.*

depends raxml:

depends sed:

>=4.4

depends xerces-c:

>=3.2.2,<3.2.3.0a0

depends xfig:

depends xorg-libxaw:

depends xorg-libxft:

depends xorg-libxi:

depends xorg-libxmu:

depends xorg-libxp:

depends xorg-libxpm:

depends xorg-libxt:

requirements:

additional platforms:

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 arb-bio

and update with::

   mamba update arb-bio

To create a new environment, run:

mamba create --name myenvname arb-bio

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/arb-bio:<tag>

(see `arb-bio/tags`_ for valid values for ``<tag>``)

package arb-bio-devel

versions:

6.0.6-8,  6.0.6-7,  6.0.6-6,  6.0.6-5,  6.0.6-4,  6.0.6-3

depends arb-bio:

6.0.6 pl526h7ded70a_8

depends libgcc-ng:

>=7.3.0

depends libstdcxx-ng:

>=7.3.0

depends openmotif-dev:

requirements:

additional platforms:

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 arb-bio-devel

and update with::

   mamba update arb-bio-devel

To create a new environment, run:

mamba create --name myenvname arb-bio-devel

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/arb-bio-devel:<tag>

(see `arb-bio-devel/tags`_ for valid values for ``<tag>``)

package arb-bio-tools

versions:

6.0.6-8,  6.0.6-7,  6.0.6-6,  6.0.6-5,  6.0.6-4,  6.0.6-3

depends glib:

>=2.58.2,<3.0a0

depends libarbdb:

6.0.6 haa8b8d8_8

depends libgcc-ng:

>=7.3.0

depends libstdcxx-ng:

>=7.3.0

requirements:

additional platforms:

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 arb-bio-tools

and update with::

   mamba update arb-bio-tools

To create a new environment, run:

mamba create --name myenvname arb-bio-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 quay.io/biocontainers/arb-bio-tools:<tag>

(see `arb-bio-tools/tags`_ for valid values for ``<tag>``)

package libarbdb

versions:

6.0.6-8,  6.0.6-7,  6.0.6-6,  6.0.6-5,  6.0.6-4,  6.0.6-3

depends gettext:

depends glib:

>=2.58.2,<3.0a0

depends libgcc-ng:

>=7.3.0

depends libstdcxx-ng:

>=7.3.0

requirements:

additional platforms:

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 libarbdb

and update with::

   mamba update libarbdb

To create a new environment, run:

mamba create --name myenvname libarbdb

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/libarbdb:<tag>

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

Download stats

Link to this page

Render an 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/arb-bio/README.html)