recipe emirge

EMIRGE reconstructs full length sequences from short sequencing reads



GPL3 / GNU General Public License v3 or later (GPLv3+)



package emirge

(downloads) docker_emirge



depends biopython:

depends bowtie:

depends libgcc-ng:


depends libzlib:


depends numpy:

depends pysam:

depends python:


depends python_abi:

2.7.* *_cp27mu

depends samtools:

depends scipy:

depends vsearch:

depends zlib:




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 emirge

and update with::

   mamba update emirge

To create a new environment, run:

mamba create --name myenvname emirge

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 `emirge/tags`_ for valid values for ``<tag>``)

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