recipe imsindel

An accurate intermediate-size indel detection tool incorporating de novo assembly and gapped global-local alignment with split read analysis

Homepage:

https://github.com/NCGG-MGC/IMSindel

License:

MIT

Recipe:

/imsindel/meta.yaml

package imsindel

(downloads) docker_imsindel

versions:

1.0.2-1,  1.0.2-0,  1.0.1-1,  1.0.1-0

depends fasta3:

depends mafft:

depends rb-bio:

depends ruby:

depends samtools:

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 imsindel

and update with::

   mamba update imsindel

To create a new environment, run:

mamba create --name myenvname imsindel

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/imsindel:<tag>

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

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Link to this page

Render an install-with-bioconda 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/imsindel/README.html)