I am maintaining a (still young) suite of command line tools (written in
Python) for identification of mutations in model organism genomes
through whole-genome sequencing (https://sourceforge.net/projects/mimodd/).
MiModD aims at geneticists that do not have much background in
bioinformatics, and it's supposed to make WGS analysis for small model
organism genomes (anything from yeast to fish) possible on regular PCs,
so it's not a cloud/cluster solution.
We do support Galaxy though through a complete set of tool wrappers for
- to provide a graphical user interface
- to offer labs the possibility to install the software on one dedicated
machine, but run analyses from any machine (typically with Windows
- to keep analysis workflows documented and reproducible.
Currently, we advise users to take advantage of these features and
install a local instance of Galaxy even though it will be running then
only on a single desktop PC (or even just a notebook). After
installation of Galaxy our software simply copies its wrapper xmls over
to the tools folder and modifies the tool_conf file to integrate itself.
In addition, users have to install a bit of other third-party software
(samtools, snap aligner, optionally snpeff) that our code relies on.
[End of lengthy introduction]
So my question is: in what way could the package profit from being
uploaded to a Galaxy toolshed ? I guess it would mean quite some extra
work from my side since I'm not familiar with the whole procedure, so
are there benefits (visibility, ease of installation, etc.) that are
worth the effort ?
Thanks a real lot for any feedback,
Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
To search Galaxy mailing lists use the unified search at: