recipe flye

A fast and accurate de novo assembler for single molecule sequencing reads using repeat graphs.

Homepage:

https://github.com/fenderglass/Flye

Documentation:

https://github.com/fenderglass/Flye/blob/flye/docs/USAGE.md

License:

BSD / BSD-3-Clause

Recipe:

/flye/meta.yaml

Links:

biotools: Flye, usegalaxy-eu: flye, doi: 10.1038/s41592-020-00971-x, doi: 10.1038/s41587-019-0072-8, doi: 10.1073/pnas.1604560113

package flye

versions:

2.9.5-1,  2.9.5-0,  2.9.4-2,  2.9.4-0,  2.9.3-1,  2.9.3-0,  2.9.2-2,  2.9.2-1,  2.9.2-0, 

2.9.5-1,  2.9.5-0,  2.9.4-2,  2.9.4-0,  2.9.3-1,  2.9.3-0,  2.9.2-2,  2.9.2-1,  2.9.2-0,  2.9.1-0,  2.9-1,  2.9-0,  2.8.3-1,  2.8.3-0,  2.8.2-0,  2.8.1-1,  2.8.1-0,  2.8-0,  2.7.1-2,  2.7.1-1,  2.7.1-0,  2.7-0,  2.6-0,  2.5-0,  2.4.2-0,  2.4.1-0,  2.4-0,  2.3.7-0,  2.3.6-3,  2.3.5-3,  2.3.4-2,  2.3.4-0,  2.3.3-0,  2.3.2-0,  2.3.1-0,  2.3-0

depends libgcc:

>=12

depends libstdcxx:

>=12

depends libzlib:

>=1.2.13,<2.0a0

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

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 flye

and update with::

   mamba update flye

To create a new environment, run:

mamba create --name myenvname flye

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/flye:<tag>

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

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