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Question: How to ask to add a new tool from galaxy team
1
gravatar for morteza-sharifinia
3.9 years ago by
morteza-sharifinia • 30
Iran, Islamic Republic Of
morteza-sharifinia • 30 wrote:

I want to analyze my data by mirTools 2. I want to know is there any way to ask to add this tool to the tools that are provided by galaxy project. Or even, I want to know is there any way to add Adapter_trim Perl script to galaxy project to get a suitable data that is usable in mirTools 2.
galaxy tools • 782 views
ADD COMMENT • link •
modified 3.9 years ago by Bjoern Gruening ♦ 5.1k • written 3.9 years ago by morteza-sharifinia • 30
1
gravatar for Bjoern Gruening
3.9 years ago by
Bjoern Gruening ♦ 5.1k
Germany
Bjoern Gruening ♦ 5.1k wrote:

Hi,

as far as I know mirTools is a collection of different tool and not a specific tool, isn't? If this is correct just search for all specific tools in Galaxy. You will find a lot of those. For example Galaxy offers you a variety of different trimming applications.

Cheers,

Bjoern
ADD COMMENT • link written 3.9 years ago by Bjoern Gruening ♦ 5.1k
1

Hi Bjoem

Actually, yes. But none of the tools are provided by galaxy. Is there any way to ask to add a new tool from galaxy team?

ADD REPLY • link written 3.9 years ago by morteza-sharifinia • 30
1

Can you give us a list of tools you need. I can't promise you that we can include them soon, but we can probably give you some drop-in-replacements.

 

ADD REPLY • link written 3.9 years ago by Bjoern Gruening ♦ 5.1k
1

Hi Bjoern

Thank you for your hopeful comment. As you know, one of the more common uses of next generation sequencing data is small RNAs identification, expression, and target detection. Actually, I need some tools to prepare data or direct use in them. Thank you again for your help in advance. I'll provide a list of tools that they might be helpful. 

ADD REPLY • link modified 3.9 years ago • written 3.9 years ago by morteza-sharifinia • 30
1

We got funding for a RNA-bioinformatic instance and integrating many RNA related tools into Galaxy, so we would very much like to know you desired workflow, so we can prioritize things.

Thanks,

Bjoern

ADD REPLY • link written 3.9 years ago by Bjoern Gruening ♦ 5.1k

Hi Bjoem

Thank you for any help in advance. Actually, we want to analyze small non-coding RNAs, like as the workflow of mirTools 2 (Link: http://122.228.158.106/mr2_dev/). But the tools that they are provided by mirTools 2 does not cover entire of our first step of the project. We need more tools that should be included. Do you want to know about the exact tools or just the workflow? I would appreciate if I could know your email to have direct contact to talk more about the workflow.

Morteza

ADD REPLY • link modified 3.9 years ago • written 3.9 years ago by morteza-sharifinia • 30
1

https://wiki.galaxyproject.org/BjoernGruening :)

ADD REPLY • link written 3.8 years ago by Bjoern Gruening ♦ 5.1k
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