recipe fast5seek

Get paths for fast5 files contained in BAM, SAM, or fastq.



MIT / MIT License



package fast5seek

(downloads) docker_fast5seek



depends ont-fast5-api:

depends pysam:

depends python:




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 fast5seek

and update with::

   mamba update fast5seek

To create a new environment, run:

mamba create --name myenvname fast5seek

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 `fast5seek/tags`_ for valid values for ``<tag>``)

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