Hi Amanda,
I would certainly be interested in using your helpful QIIME wrappers if
you put them on the Toolshed.
Best,
Florent
On 06/02/12 06:22, Amanda Zuzolo wrote:
Hello, all.
I have been working on getting the Qiime scripts into Galaxy as
mentioned before, and they are working with Qiime
Hello Amanda,
I was just about to embark on EXACTLY this process, so I would certainly be
very interested in saving myself some work.
Would there be any issue (that you're aware of, of course) with using QIIME
1.4.0 instead of 1.3?
-Jeff
On Tue, Feb 7, 2012 at 2:32 AM, Florent Angly
Rob,
I am not aware that there would be any issue, as I've verified all the
options with the Qiime documentation that is up now (and I've
eliminated those being deprecated).
Amanda Zuzolo
On 2/7/12, Jeffrey Long jlo...@ualberta.ca wrote:
Hello Amanda,
I was just about to embark on EXACTLY
I can't make the call at that time (am in Dhaka) but am very enthusiastic about that effort; please keep me in the loop. I am cc:ing a couple of the people in my lab who also indicated interest in the qiime/galaxy integration effort (though Antonio won't be able to make it either, for the same
I'll be there
Daniel
On Feb 7, 2012, at 10:30, Greg Caporaso gregcapor...@gmail.com wrote:
OK, let's plan on a Skype call at 1pm MT/3pm ET this Thursday (9 Feb
2012). I will initiate the call - my Skype ID is gregcaporaso. Please
let me know if you'd like to join the call, and send my your
Skype ID : patrickgillevet
On Feb 7, 2012, at 12:33 PM, Daniel McDonald wrote:
I'll be there
Daniel
On Feb 7, 2012, at 10:30, Greg Caporaso gregcapor...@gmail.com wrote:
OK, let's plan on a Skype call at 1pm MT/3pm ET this Thursday (9 Feb
2012). I will initiate the call - my Skype
That's great news! Thanks for checking.
Rob
On Feb 7, 2012, at 10:59 AM, Amanda Zuzolo wrote:
Rob,
I am not aware that there would be any issue, as I've verified all the
options with the Qiime documentation that is up now (and I've
eliminated those being deprecated).
Amanda Zuzolo
OK, let's plan on a Skype call at 1pm MT/3pm ET this Thursday (9 Feb
2012). I will initiate the call - my Skype ID is gregcaporaso. Please
let me know if you'd like to join the call, and send my your skype id.
Looking forward to talking about this!
Greg
2012/2/7 Rob Knight
Jim et al
Amanda has most of the scripts working now and will be putting them up on the
toolshed.
She will be in touch as soon as the scripts are validated a couple of times
with different datasets.
cheers...
Pat
On Dec 29, 2011, at 3:02 PM, Jim Johnson wrote:
It is easiest to generate
This is great news -- thanks for letting us know, and for your hard work on this!RobOn Jan 29, 2012, at 9:46 AM, Jim Johnson wrote:
Pat,
That sounds great. Do one of you want to take ownership of the
toolshed repository?
At minimum, we should add developers to
Hi all,
Do you have a working tool definition file for QIIME's
beta_diversity_through_plots.py script? We're investigating whether
replacing the Fast UniFrac website with this would be feasible, and
I'd like to see if you have something together before I try to write
one myself.
Thanks!
Greg
On
Pat,
That sounds great. Do one of you want to take ownership of the toolshed
repository?
At minimum, we should add developers to the list that can push changes.
Thanks,
JJ
On 1/28/12 9:37 AM, Gillevet Patrick wrote:
Jim et al
Amanda has most of the scripts working now and will be putting
, Jesse Stombaugh jistomba...@gmail.com,
Zuzolo Amanda azuz...@gmu.edu, Antonio Gonz?lez
antgo...@gmail.com, Gillevet Patrick pgill...@gmu.edu,
j...@umn.edu,
Daniel McDonald was...@gmail.com
Subject: Re: [galaxy-dev] Existing efforts to convert the QIIME
pipeline
Hello all,
I'm working on a local instance of Galaxy at George Mason University. We'd
been looking into integrating Qiime and I've found the toolkit very helpful,
thanks! I did have one question, though: would you mind uploading the
tool_conf file or chunk of text with the qiime functions in it?
here's what i have; i started categorizing the tools under labels but hadn't
finished. i'm also working on getting these tools working in galaxy (albeit
slowly as we won't need them until we get a miseq machine in oct), but maybe
we can be in communication with each other and jjohnson.
section
I took a look and it's a great start. I can work on it 1d/wk. I'll email
you again after I push my revisions to the toolshed. Or email me anytime
you want me to push whatever I've got at that time.
Thanks,
Ed
On Sun, Jul 17, 2011 at 8:39 AM, Jim Johnson johns...@umn.edu wrote:
Ed,
I
Ed,
I pushed what code I had to the toolshed repository qiime and gave you push
permissions.
I'm not sure when I'll have time to work on it again.
Thanks,
JJ
On 7/15/11 3:18 PM, Edward Kirton wrote:
fantastic, thanks!
i'm also available to help out, so perhaps you can find me something
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