Hi!
On 28 August 2014 08:08, Michael Miller
wrote:
> i agree that it's hard to distinguish between 'clever and non-clever'
> functions but not if you change the criteria to the distinction between
> transforming and mapping functions upon the data themselves, here we have
> a clear mapping func
hcls;
pav-ontol...@googlegroups.com
*Subject:* Re: hcls dataset description comments--Dataset Descriptions vs.
PROV
I disagree.
In my opinion it is subjective to use "import" when some unspecified
functions are applied to the data that is being incorporated in a new
dataset, but
//tcga-data.nci.nih.gov/tcga/tcgaDownload.jsp and
>> https://tcga-data.nci.nih.gov/ccg-data-web/searchForTCGAData.htm
>>
>> [3]
>> http://gdac.broadinstitute.org/runs/stddata__2014_07_15/data/STAD/20140715/
>> and the file
>> gdac.broadinstitute.org_STAD.Merge_mirn
ene_expression__data.Level_3.2014071500.0.0.tar.gz>
>
>
>
>
>
> *From:* st...@mygrid.org.uk [mailto:st...@mygrid.org.uk] *On Behalf Of *Stian
> Soiland-Reyes
> *Sent:* Wednesday, August 20, 2014 5:46 PM
> *To:* Alasdair J G Gray
> *Cc:* w3c semweb hcls; Joachim Baran;
.@mygrid.org.uk<mailto:st...@mygrid.org.uk>
[mailto:st...@mygrid.org.uk<mailto:st...@mygrid.org.uk>] On Behalf Of Stian
Soiland-Reyes
Sent: Wednesday, August 20, 2014 5:46 PM
To: Alasdair J G Gray
Cc: w3c semweb hcls; Joachim Baran; Michael Miller
Subject: Re: hcls dataset description comme
.@mygrid.org.uk [mailto:st...@mygrid.org.uk] *On Behalf Of *Stian
Soiland-Reyes
*Sent:* Wednesday, August 20, 2014 5:46 PM
*To:* Alasdair J G Gray
*Cc:* w3c semweb hcls; Joachim Baran; Michael Miller
*Subject:* Re: hcls dataset description comments--Dataset Descriptions vs.
PROV
Hi, sorry for not re
gt;
> but this has lead me to ask the question of what is the relation of Dataset
> Descriptions and PROV and how should they/should they be used together? i
> think the above use case is quite common for datasets being published so
> might deserve a discussion in the Dataset Descriptions note
>
gineer
>
> Institute for Systems Biology
>
>
>
>
>
> From: Joachim Baran [mailto:joachim.ba...@gmail.com]
> Sent: Monday, August 11, 2014 8:00 AM
> To: Michael Miller
>
>
> Cc: Stian Soiland-Reyes; w3c semweb hcls
> Subject: Re: hcls dataset description comm
*Subject:* Re: hcls dataset description comments--Dataset Descriptions vs.
PROV
Great! Before you send the pull request, please make sure that W3C's HTML
validation passes: http://validator.w3.org/#validate_by_input
Kim
On 9 August 2014 10:15, Michael Miller
wrote:
hi kim,
i&#x
PROV.
cheers,
michael
Michael Miller
Software Engineer
Institute for Systems Biology
*From:* Joachim Baran [mailto:joachim.ba...@gmail.com]
*Sent:* Monday, August 11, 2014 8:00 AM
*To:* Michael Miller
*Cc:* Stian Soiland-Reyes; w3c semweb hcls
*Subject:* Re: hcls dataset description com
; > Sent: Friday, August 08, 2014 6:46 PM
> > To: Michael Miller
> > Cc: Stian Soiland-Reyes; w3c semweb hcls
> > Subject: Re: hcls dataset description comments--Dataset Descriptions vs.
> > PROV
> >
> > Hello,
> >
> > Has there been an update to
published so
might deserve a discussion in the Dataset Descriptions note
cheers,
michael
Michael Miller
Software Engineer
Institute for Systems Biology
From: Joachim Baran [mailto:joachim.ba...@gmail.com]
Sent: Thursday, July 31, 2014 3:43 PM
To: Michael Miller
Cc: w3c semweb hcls
Subjec
achim Baran [mailto:joachim.ba...@gmail.com]
> Sent: Friday, August 08, 2014 6:46 PM
> To: Michael Miller
> Cc: Stian Soiland-Reyes; w3c semweb hcls
> Subject: Re: hcls dataset description comments--Dataset Descriptions vs.
> PROV
>
> Hello,
>
> Has there been an update to this? Preferab
neer
> Institute for Systems Biology
>
>
>> -Original Message-
>> From: st...@mygrid.org.uk [mailto:st...@mygrid.org.uk] On Behalf Of Stian
>> Soiland-Reyes
>> Sent: Tuesday, August 05, 2014 5:38 AM
>> To: Michael Miller
>> Cc: Joachim Baran; w3c semwe
gt; To: Michael Miller
> Cc: Joachim Baran; w3c semweb hcls
> Subject: Re: hcls dataset description comments--Dataset Descriptions vs.
> PROV
>
> Just some inputs:
>
>
> PROV defines prov:wasDerivedFrom which in broad sense describes such a
> relationset between datasets. How
e a discussion in the Dataset Descriptions note
>
>
>
> cheers,
>
> michael
>
>
>
> Michael Miller
>
> Software Engineer
>
> Institute for Systems Biology
>
>
>
>
>
> From: Joachim Baran [mailto:joachim.ba...@gmail.com]
> Sent: Thursday, J
oftware Engineer
Institute for Systems Biology
-Original Message-
From: Michel Dumontier [mailto:michel.dumont...@gmail.com<http://gmail.com>]
Sent: Monday, August 04, 2014 10:14 AM
To: Joachim Baran
Cc: Michael Miller; w3c semweb hcls
Subject: Re: hcls dataset description comments--Dataset
gt; To: Joachim Baran
> Cc: Michael Miller; w3c semweb hcls
> Subject: Re: hcls dataset description comments--Dataset Descriptions vs.
> PROV
>
> On Mon, Aug 4, 2014 at 10:08 AM, Joachim Baran
> wrote:
> > Having said that, our note apparently is not clear on that particular
On Mon, Aug 4, 2014 at 10:08 AM, Joachim Baran wrote:
> Having said that, our note apparently is not clear on that particular
> aspect. We will see what we can do about this.
We would welcome some prose from you and Melissa so that it
communicates what you feel is necessary for other potential us
n
> by the groups themselves? if i have permission, i can certainly add them as
> issues.
>
> cheers,
> michael
>
> Michael Miller
> Software Engineer
> Institute for Systems Biology
>
>
> From: Joachim Baran [mailto:joachim.ba...@gmail.com]
> Sent
el
Michael Miller
Software Engineer
Institute for Systems Biology
*From:* Melissa Haendel [mailto:haen...@ohsu.edu]
*Sent:* Monday, August 04, 2014 9:56 AM
*To:* Michael Miller
*Cc:* Joachim Baran; w3c semweb hcls
*Subject:* Re: hcls dataset description comments--Dataset Descriptions vs
To: Michael Miller
Cc: w3c semweb hcls
Subject: Re: hcls dataset description comments
Hi!
I will ponder about your edit suggestion of your first bullet point. I am not
sure at the moment if it would have wider implications.
You are right that the use cases were written by the groups themse
cheers,
michael
Michael Miller
Software Engineer
Institute for Systems Biology
*From:* Joachim Baran [mailto:joachim.ba...@gmail.com]
*Sent:* Thursday, July 31, 2014 3:43 PM
*To:* Michael Miller
*Cc:* w3c semweb hcls
*Subject:* Re: hcls dataset description comments
Hi!
I w
ology
>
>
>
>
>
> *From:* Joachim Baran [mailto:joachim.ba...@gmail.com]
> *Sent:* Tuesday, July 29, 2014 11:56 AM
>
> *To:* Michael Miller
> *Cc:* w3c semweb hcls
> *Subject:* Re: hcls dataset description comments
>
>
>
> Hi!
>
>
>
> Than
ichael Miller
*Cc:* w3c semweb hcls
*Subject:* Re: hcls dataset description comments
Hi!
Thanks for the suggestions. I have incorporated your minor edits.
Unbelievable how those slipped through after so many re-readings still.
For other edits, please fork the repository and crea
ions
>
> · s8.8.1: '... what period it is updated. To know when to...'
> should be '...what period it is updated to know when to...'?
>
>
>
> *From:* Joachim Baran [mailto:joachim.ba...@gmail.com]
> *Sent:* Tuesday, July 22, 2014 3:43 PM
> *To
there are two s6.2.3 sections
· s8.8.1: '... what period it is updated. To know when to...'
should be '...what period it is updated to know when to...'?
*From:* Joachim Baran [mailto:joachim.ba...@gmail.com]
*Sent:* Tuesday, July 22, 2014 3:43 PM
*To:* Michae
Hello,
I believe you were looking at an old document. There is currently only
one Figure in the note.
Please check the actual draft at:
http://htmlpreview.github.io/?https://github.com/joejimbo/HCLSDatasetDescriptions/blob/master/Overview.html
Best wishes,
Kim
On 22 July 2014 15:36, Mich
hi all,
tremendous work, very clear and well-written. my group at ISB, the
Shmulevich lab is looking to provide provenance for the analysis datasets
we are producing for TCGA. we're not sure if we'll be able to 'go all the
way' but we want to make sure we have at hand all the information that
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