recipe makehub

MakeHub is a command line tool for the fully automatic generation of of track data hubs for visualizing genomes with the UCSC genome browser.



GPL / GPL-3.0



package makehub

(downloads) docker_makehub



depends augustus:


depends biopython:

depends python:


depends samtools:

depends ucsc-bedtobigbed:

depends ucsc-fatotwobit:

depends ucsc-genepredcheck:

depends ucsc-genepredtobed:

depends ucsc-genepredtobiggenepred:

depends ucsc-gtftogenepred:

depends ucsc-hggcpercent:

depends ucsc-ixixx:

depends ucsc-twobitinfo:

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 makehub

and update with::

   mamba update makehub

To create a new environment, run:

mamba create --name myenvname makehub

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

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