recipe seq2science

Automated preprocessing of Next-Generation-Sequencing data.

Homepage:

https://vanheeringen-lab.github.io/seq2science

Developer docs:

https://github.com/vanheeringen-lab/seq2science

License:

MIT / MIT

Recipe:

/seq2science/meta.yaml

package seq2science

(downloads) docker_seq2science

versions:
1.2.1-0,  1.2.0-0,  1.1.0-0,  1.0.4-0,  1.0.3-0,  1.0.2-0,  1.0.0-1,  1.0.0-0,  0.9.9-0, 

1.2.1-0,  1.2.0-0,  1.1.0-0,  1.0.4-0,  1.0.3-0,  1.0.2-0,  1.0.0-1,  1.0.0-0,  0.9.9-0,  0.9.8-0,  0.9.7-0,  0.9.6-0,  0.9.5-0,  0.9.4-0,  0.9.3-0,  0.9.2-1,  0.9.2-0,  0.9.1-0,  0.9.0-0,  0.8.0-0,  0.7.2-0,  0.7.1-0,  0.7.0-0,  0.6.1-0,  0.6.0-0,  0.5.6-0,  0.5.5-0,  0.5.4-0,  0.5.3-0,  0.5.2-0,  0.5.1-0,  0.5.0-0,  0.4.3-0,  0.4.2-0,  0.4.1-0,  0.4.0-1,  0.4.0-0,  0.3.2-0,  0.3.1-0,  0.3.0-0,  0.2.3-0,  0.2.2-1,  0.2.2-0,  0.2.1-0,  0.2.0-0,  0.1.0-0,  0.0.3-0,  0.0.2-0,  0.0.1-0,  0.0.0-0

depends argcomplete:

3.0.5.*

depends biopython:

1.81.*

depends conda:

23.1.0.*

depends conda-ecosystem-user-package-isolation:

1.0.*

depends filelock:

3.10.7.*

depends genomepy:

0.16.1.*

depends mamba:

1.2.0.*

depends matplotlib-base:

3.7.1.*

depends pandas:

1.5.3.*

depends pandas_schema:

0.3.5.*

depends pysradb:

2.0.1.*

depends python:

3.10.*

depends pyyaml:

6.0.*

depends snakemake-minimal:

7.25.0.*

depends tabulate:

0.9.0.*

depends trackhub:

0.1.2019.12.24.*

depends xdg:

6.0.0.*

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 seq2science

and update with::

   mamba update seq2science

To create a new environment, run:

mamba create --name myenvname seq2science

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/seq2science:<tag>

(see `seq2science/tags`_ for valid values for ``<tag>``)

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