- recipe verkko
Assembler for hybrid combinations of long reads
- Homepage:
- License:
CC0
- Recipe:
- package verkko¶
- versions:
2.0-0
,1.4.1-0
,1.4-0
,1.3.1-0
,1.3-0
,1.2-0
,1.1-1
,1.1-0
,1.0-3
,2.0-0
,1.4.1-0
,1.4-0
,1.3.1-0
,1.3-0
,1.2-0
,1.1-1
,1.1-0
,1.0-3
,1.0-2
,1.0-1
,1.0-0
- depends _openmp_mutex:
>=4.5
- depends biopython:
- depends bwa:
>=0.7.17
- depends findutils:
>=4.6.0
- depends graphaligner:
>=1.0.19
- depends gsl:
>=2.7,<2.8.0a0
- depends libgcc-ng:
>=12
- depends libstdcxx-ng:
>=12
- depends libzlib:
>=1.2.13,<1.3.0a0
- depends mashmap:
>=3.0.6
- depends networkx:
>=2.6.3
- depends parasail-python:
>=1.3.3
- depends perl:
>=5.6
- depends python:
>=3.7
- depends samtools:
>=1.17
- depends seqtk:
- depends snakemake-minimal:
>=7.8.0,<8.0
- depends winnowmap:
>=2.0
- 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 verkko and update with:: mamba update verkko
To create a new environment, run:
mamba create --name myenvname verkko
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/verkko:<tag> (see `verkko/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 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/verkko/README.html)