recipe rnftools

RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.






package rnftools

(downloads) docker_rnftools


depends art:

depends beautifulsoup4:

depends bwa:

depends curesim:

depends dwgsim:

depends gnuplot:


depends mason:

depends pyfaidx:

depends pysam:

depends python:


depends reportlab:


depends samtools:

depends snakemake-minimal:

depends svg42pdf:


depends wgsim:



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 rnftools

and update with::

   mamba update rnftools

To create a new environment, run:

mamba create --name myenvname rnftools

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

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