Hello Dave,

Thanks for the mail.

The Galaxy-P 101 was written and used by us (John Chilton and myself) in November 2012 and it was last tested in July 2013. It will be great if anyone has an opportunity to see if and how it works.

There is a need for a new GalaxyP 101 - which we will do so after we have new set of tools such as MS-GF+ and PeptideShaker installed. As we publish, we will also have pages and tutorials for proteogenomics and metaproteomics workflows.

> Galaxy-P folks: How do you feel about others using the Galaxy-P 101 in > workshops?  I can imagine installing all the tools on the workshop servers > (in which case it seems like an easy win), or running directly off Galaxy-P (which would better highlight Galaxy-P, but put a load on your servers).

Once tested, I think it is a good idea to have GalaxyP101 on the workshop servers. 

For most of our proteomics work - we have been using ProteinPilot ( a Windows-based commercial tool). We have a webinar available in case users are interested  -  z.umn.edu/ppingp

Thanks and Regards,

Pratik

Pratik Jagtap,
Managing Director,
Center for Mass Spectrometry and Proteomics,
43 Gortner Laboratory
1479 Gortner Avenue
St. Paul, MN 55108
Phone: 612-624-9275


On Fri, May 23, 2014 at 11:54 AM, Dave Clements <clements@galaxyproject.org> wrote:
Hi Pratik and JJ,

Just a heads up that there's a relevant thread on the Galaxy-Proteomics list that you might want to respond to.

Bart is on the list, but I don't think either of you are.  If you respond, please respond on-list, if you are comfortable with that.

Thanks,

Dave C



---------- Forwarded message ----------
From: Dave Clements <clements@galaxyproject.org>
Date: Fri, May 23, 2014 at 9:52 AM
Subject: Re: [galaxy-proteomics] Worked Proteomics Example for a Galaxy Workshop?
To: Ira Cooke <I.Cooke@latrobe.edu.au>
Cc: Galaxy Proteomics List <galaxy-proteomics@lists.bx.psu.edu>


Hi Ira,

Thanks for the pointer.  And many thanks to the Galaxy-P folks for creating this.  In hindsight (which I'm really good at), Galaxy-P seems an obvious place to look for this.

The example looks enormous, but it's well documented.  I'll give it a careful look.

And, for this workshop and for future reference:

Galaxy-P folks: How do you feel about others using the Galaxy-P 101 in workshops?  I can imagine installing all the tools on the workshop servers (in which case it seems like an easy win), or running directly off Galaxy-P (which would better highlight Galaxy-P, but put a load on your servers).

Thanks again,

Dave C.




On Thu, May 22, 2014 at 5:36 PM, Ira Cooke <I.Cooke@latrobe.edu.au> wrote:
Hi Dave, 

I haven’t gone through it myself, but this looks good


Cheers
Ira


On 23 May 2014, at 5:11 am, Dave Clements <clements@galaxyproject.org> wrote:

Hello all,

Does anyone know of worked proteomics analysis that I could use for a Galaxy workshop?  I'm giving a workshop in July and the hosts are interested in proteomics.  I did tell them I currently have no knowledge of proteomics, so they aren't expecting me to cover it.  However, if a ready made example is out there, I might be able to come up to speed on the basics before then

Thanks,

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