recipe ont-tombo

Detection of modified bases from raw nanopore sequencing data.

Homepage:

https://nanoporetech.github.io/tombo/

License:

mpl-2.0

Recipe:

/ont-tombo/meta.yaml

package ont-tombo

versions:

1.5.1-2,  1.5.1-0,  1.5-2,  1.5-1,  1.5-0,  1.4-0,  1.3-1,  1.3-0,  1.2.1.2-0, 

1.5.1-2,  1.5.1-0,  1.5-2,  1.5-1,  1.5-0,  1.4-0,  1.3-1,  1.3-0,  1.2.1.2-0,  1.2.1-0,  1.2.1b-0,  1.2-0,  1.1.1-0,  1.1-0,  1.0-0

depends future:

depends h5py:

depends libgcc-ng:

>=7.5.0

depends libstdcxx-ng:

>=7.5.0

depends mappy:

>=2.10

depends numpy:

depends pyfaidx:

depends python:

>=2.7,<2.8.0a0

depends python_abi:

2.7.* *_cp27mu

depends r-base:

>=3.6,<3.7.0a0

depends r-ggplot2:

depends r-gridextra:

depends rpy2:

<=2.8.6

depends scipy:

depends tqdm:

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 ont-tombo

and update with::

   mamba update ont-tombo

To create a new environment, run:

mamba create --name myenvname ont-tombo

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/ont-tombo:<tag>

(see `ont-tombo/tags`_ for valid values for ``<tag>``)

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Link to this page

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