recipe methylpy

Bisulfite sequencing data processing and differential methylation analysis




APACHE / Apache-2.0




doi: 10.1038/nature14465

package methylpy

(downloads) docker_methylpy



depends bowtie:

depends bowtie2:

depends cutadapt:


depends gsl:


depends libgcc-ng:


depends libstdcxx-ng:


depends minimap2:

depends numpy:


depends openjdk:

depends picard:


depends pysam:


depends python:


depends python_abi:

3.10.* *_cp310

depends samtools:


depends scipy:


depends ucsc-wigtobigwig:



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 methylpy

and update with::

   mamba update methylpy

To create a new environment, run:

mamba create --name myenvname methylpy

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

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