Question: Request to add ITSX to the main Galaxy instance
0
gravatar for matt_bowser
6 weeks ago by
matt_bowser0 wrote:

Dear Galaxy folks,

I need to analyze some fungal ITS metagenomic community data. Can the ITS Extractor tool (ITSX) be added to the main Galaxy instance? I see two versions of this tool in the tool shed (URIs below)

https://toolshed.g2.bx.psu.edu/view/aafc-mbb/itsx/57e76d405a97

https://toolshed.g2.bx.psu.edu/view/okorol/itsx/3610c6312b85

Inclusion of this tool would enable me (and I imagine others, also) to more appropriately handle fungal ITS metagenomic data on Galaxy. See an article on this topic at the URI below.

https://doi.org/10.3897/mycokeys.39.28109

Thank you for your help.

Sincerely,

Matt

its galaxy metagenomics • 67 views
ADD COMMENTlink modified 6 weeks ago • written 6 weeks ago by matt_bowser0
0
gravatar for Jennifer Hillman Jackson
6 weeks ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

There are no active plans for adding these tools to the public Galaxy Main server https://usegalaxy.org and these are not installed at other usegalaxy.* server. You might also check to see if another public Galaxt hosts them. Or, you could add the tools to your own Galaxy.

These tool wrappers are a few years older, do not use the newest dependency methods (conda/bioconda packages), and probably need an update. So, if you have problems installing or running them, contact the repository owner or lab to let them know. They may also have feedback about future development plans.

Resources:

Thanks, Jen, Galaxy team

ADD COMMENTlink written 6 weeks ago by Jennifer Hillman Jackson25k
0
gravatar for matt_bowser
6 weeks ago by
matt_bowser0 wrote:

Thank you, Jen!

For now I will see about running this part of my analyses outside of Galaxy.

Sincerely,

Matt

ADD COMMENTlink written 6 weeks ago by matt_bowser0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 109 users visited in the last hour