Re: [ccp4bb] test data sets part II...

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

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Subject: Re: test data sets part II...
From: "Mark J {- dot -} van Raaij" mark {- dot -} vanraaij {- at -} USC {- dot -} ES
Date: 2008-10-02

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Subject: Re: test data sets part II...
From: Ashley Buckle ashley {- dot -} buckle {- at -} MED {- dot -} MONASH {- dot -} EDU {- dot -} AU
Date: 2008-10-02

Hi Mark
We are more than happy to help you setup a local repository - its
fairly painless and cheap. Otherwise - we'll host your data - we
have the solution worked out pretty much here and have moved on quite
a bit from the Androulakis paper - see http://www.tardis.edu.au.
It might cost you a beer (or two) or perhaps an invitation to sunny
Spain :)
cheers
Ashley

On 02/10/2008, at 9:12 PM, Mark J. van Raaij wrote:

> Dear All,
>
> with regards to diffraction images storage (see also Androulakis et
> al., Acta Cryst. (2008). D64, 810–814: "Federated repositories of X-
> ray diffraction images"), I am all for it - one to be able to catch
> fraud, but more importantly so structures can be improved in the
> future and better data processing programs can be developed.
>
> However, I would welcome a central repository or at least a central
> organisation of local nodes, because I can see no local solution
> where I am (probably other small macromolecular crystallography
> groups would have the same problem). In fact, if someone would agree
> to "host" our data I would be happy to upload datasets. For some
> datasets it would even be useful if I could send the digital tapes,
> we don't have a reader for them anymore and in that way we ourselves
> can have access to our own data...
>
> Greetings,
>
> Mark
>
> Mark J. van Raaij
> Dpto de Bioquímica, Facultad de Farmacia
> Universidad de Santiago
> 15782 Santiago de Compostela
> Spain
> http://web.usc.es/~vanraaij/
>
>
>
>
>
>
>
> On 24 Sep 2008, at 02:43, Ashley Buckle wrote:
>
>> We put our raw data, plus metadata here: http://www.tardis.edu.au
>> JCSG also make data available, but I think its just an archive,
>> with little or no annotation
>> cheers
>> Ashley
>>
>> On 24/09/2008, at 7:02 AM, afyfe wrote:
>>
>>> Dear Tommi,
>>> I'm not sure whether 'test data sets part I' relates to the
>>> query I mailed the other day but, in light of the recent posts
>>> regarding fundamental literature, your suggestion seems an
>>> excellent one.
>>>
>>> Perhaps I'm not looking in the right places, but finding examples
>>> of image sets exhibiting e.g., radiation damage, crystal slippage,
>>> autoindexing failures or any of the aberrations shown in Phil
>>> Evans' excellent scala tutorial seems difficult. Likewise for
>>> examples of good and bad final-refinement maps. Making primary/
>>> intermediate data available would benefit both students and
>>> algorithm comparison/validation (e.g. measuring performance on
>>> standard data sets is routine in data-visualization/image-
>>> processing papers).
>>>
>>> Tommi Kajander wrote:
>>>
>>>> Also, i think that would be nice if this type of info could be
>>>> put on the web, part of the wiki for instance..
>>>> if there is some consensus to what works + the typical proteins
>>>> easily available.
>>>>
>>>> Tommi Kajander, Ph.D.
>>>> Structural Biology and Biophysics
>>>> Institute of Biotechnology
>>>> University of Helsinki
>>>> Viikinkaari 1
>>>> (P.O. Box 65)
>>>> 00014 Helsinki
>>>> Finland
>>>> p. +358-9-19158903
>>>> tommi.kajander@helsinki.fi
>>>
>>>
>>>
>>> --
>>> Alastair Fyfe
>>> Graduate Student
>>> Biomolecular Engineering Dept.
>>> University of California, Santa Cruz
>>
>>
>>
>> Associate Professor Ashley M Buckle
>> NHMRC Senior Research Fellow
>> The Department of Biochemistry and Molecular Biology
>> School of Biomedical Sciences, Faculty of Medicine &
>> Victorian Bioinformatics Consortium (VBC)
>> Monash University, Clayton, Vic 3800
>> Australia
>>
>> http://www.med.monash.edu.au/biochem/staff/abuckle.html
>> iChat/AIM: blindcaptaincat
>> skype: ashley.buckle
>> Tel: (613) 9902 0269 (office)
>> Tel: (613) 9905 1653 (lab)
>>
>> Fax : (613) 9905 4699
>>
>>
>>
>>
>

Associate Professor Ashley M Buckle
NHMRC Senior Research Fellow
The Department of Biochemistry and Molecular Biology
School of Biomedical Sciences, Faculty of Medicine &
Victorian Bioinformatics Consortium (VBC)
Monash University, Clayton, Vic 3800
Australia

http://www.med.monash.edu.au/biochem/staff/abuckle.html
iChat/AIM: blindcaptaincat
skype: ashley.buckle
Tel: (613) 9902 0269 (office)
Tel: (613) 9905 1653 (lab)

Fax : (613) 9905 4699

CCP4bb navigation

CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: test data sets part II...
From: "Mark J {- dot -} van Raaij" mark {- dot -} vanraaij {- at -} USC {- dot -} ES
Date: 2008-10-02

Next message:
Subject: postdoctoral or graduate student position, Singapore
From: Sheemei slok {- at -} PURDUE {- dot -} EDU
Date: 2008-10-02