Visualization

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Visualization

Timothee Brochier
Dear Stanford Protégé team,

Thank you for this nice program, we started to use it here in my research group in Senegal (University Cheikh Anta Diop, Dakar), as a tool to build an ontology  to describe senegalese artisanal fisheries dynamics. I am myself not a specialist of this approach but I see a great potential and want to introduce the tool to our students.

My first question is about visualization : is there a way to make appear the individuals un the graphs? I noticed it is possible using VOWL but I did not manage to export ontology from Web Protégé to VOWL. Any suggestions about that?

Best regards,
Timothée Brochier,
UMMISCO - Dakar, Senegal

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Re: Visualization

Ghislain ATEMEZING
Hi Timothée,
I'm not sure if WebProtege gives you access to many Visualization plugins available in the stand-alone version of Protege [0] 
Regarding VOWL, it will be better to use the Protege version and install the plugin [1]. Another option, is to use directly WebVOWL [2] directly on a browser. Installation is also very simple or you just pass the URI of your ontology like this http://vowl.visualdataweb.org/webvowl/#iri=http://xmlns.com/foaf/0.1/ (in the case of foaf [3])

HTH
Best,
Ghislain
[1]   http://vowl.visualdataweb.org/protegevowl.html   
[3]  https://lov.linkeddata.es/dataset/lov/vocabs/foaf   
On Thu, Oct 3, 2019 at 1:20 PM Timothee Brochier <[hidden email]> wrote:
Dear Stanford Protégé team,

Thank you for this nice program, we started to use it here in my research group in Senegal (University Cheikh Anta Diop, Dakar), as a tool to build an ontology  to describe senegalese artisanal fisheries dynamics. I am myself not a specialist of this approach but I see a great potential and want to introduce the tool to our students.

My first question is about visualization : is there a way to make appear the individuals un the graphs? I noticed it is possible using VOWL but I did not manage to export ontology from Web Protégé to VOWL. Any suggestions about that?

Best regards,
Timothée Brochier,
UMMISCO - Dakar, Senegal

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https://mailman.stanford.edu/mailman/listinfo/protege-user


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Re: Visualization

Michael DeBellis-2
In reply to this post by Timothee Brochier
Just a bit more on WebVOWL:  From the home page select "Run WebVOWL". Then look on the bottom where it says "Ontology". This is where I got confused at first. When you move the mouse over "Ontology" you will get a popup menu. My first thought was to click on the button that says "Upload" but before you do that you need to move the mouse over the field to the left of that button that says "Select Ontology File" and click on that. When you do that you will be prompted with the usual dialog of whatever OS you are using to navigate to a file. Use that to select the OWL file and then you can click the "Upload" button. 

A few more points: remember that WebVOWL of course doesn't do any reasoning on your ontology. So if you have rules or DL statements that cause a lot of inferred values all that will not be reflected if you just use the standard way of loading your ontology. Instead what you should do is first load your ontology into Protege, run the reasoner, and then use the "File>Export inferred axioms as ontology" option. Then use that exported file as the file you upload to WebVOWL so you can see all the inferred data as well. 

Also, there are a bunch of different WebVOWL options for pinning classes, determining the nesting level for the display, various filter options, etc. In my experience it takes a while of tweaking these different settings to figure out how they work and how to get graphs that are actually useful as opposed to "Gee how cool hundreds of connected bubbles bouncing around on the screen" which was my first impression. 

Michael

On Thu, Oct 3, 2019 at 4:20 AM Timothee Brochier <[hidden email]> wrote:
Dear Stanford Protégé team,

Thank you for this nice program, we started to use it here in my research group in Senegal (University Cheikh Anta Diop, Dakar), as a tool to build an ontology  to describe senegalese artisanal fisheries dynamics. I am myself not a specialist of this approach but I see a great potential and want to introduce the tool to our students.

My first question is about visualization : is there a way to make appear the individuals un the graphs? I noticed it is possible using VOWL but I did not manage to export ontology from Web Protégé to VOWL. Any suggestions about that?

Best regards,
Timothée Brochier,
UMMISCO - Dakar, Senegal

_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user

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Re: Visualization

Imane EL ARABI
Hello all, 
Have you tried other solutions for visualization other than webvowl? (Open source or not) because i just find it a bit time consuming to having to save your ontology, transform to json and then upload to webvowl whenever you want to check your ontology while designing it. 
Thank you in advance

Le jeu. 3 oct. 2019 à 17:14, Michael DeBellis <[hidden email]> a écrit :
Just a bit more on WebVOWL:  From the home page select "Run WebVOWL". Then look on the bottom where it says "Ontology". This is where I got confused at first. When you move the mouse over "Ontology" you will get a popup menu. My first thought was to click on the button that says "Upload" but before you do that you need to move the mouse over the field to the left of that button that says "Select Ontology File" and click on that. When you do that you will be prompted with the usual dialog of whatever OS you are using to navigate to a file. Use that to select the OWL file and then you can click the "Upload" button. 

A few more points: remember that WebVOWL of course doesn't do any reasoning on your ontology. So if you have rules or DL statements that cause a lot of inferred values all that will not be reflected if you just use the standard way of loading your ontology. Instead what you should do is first load your ontology into Protege, run the reasoner, and then use the "File>Export inferred axioms as ontology" option. Then use that exported file as the file you upload to WebVOWL so you can see all the inferred data as well. 

Also, there are a bunch of different WebVOWL options for pinning classes, determining the nesting level for the display, various filter options, etc. In my experience it takes a while of tweaking these different settings to figure out how they work and how to get graphs that are actually useful as opposed to "Gee how cool hundreds of connected bubbles bouncing around on the screen" which was my first impression. 

Michael

On Thu, Oct 3, 2019 at 4:20 AM Timothee Brochier <[hidden email]> wrote:
Dear Stanford Protégé team,

Thank you for this nice program, we started to use it here in my research group in Senegal (University Cheikh Anta Diop, Dakar), as a tool to build an ontology  to describe senegalese artisanal fisheries dynamics. I am myself not a specialist of this approach but I see a great potential and want to introduce the tool to our students.

My first question is about visualization : is there a way to make appear the individuals un the graphs? I noticed it is possible using VOWL but I did not manage to export ontology from Web Protégé to VOWL. Any suggestions about that?

Best regards,
Timothée Brochier,
UMMISCO - Dakar, Senegal

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[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user
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Re: Visualization

Michael DeBellis-2
I never use WebVOWL while designing an ontology and I've never needed any tool other than the Desktop version of Protege to design an ontology. There are an incredibly number of tabs, views and plugins in Protege and it gives me all the info I need to design an ontology. Is there anything specific you want to view that you can't see in Protege? If you are a new user it's possible you may not have stumbled over the tab or view that you need. I only use WebVOWL when I have a completed version of my ontology that I want to present to others who may not be familiar with OWL or Protege, e.g., in a conference paper. 

On Thu, Oct 3, 2019 at 8:21 AM Imane EL ARABI <[hidden email]> wrote:
Hello all, 
Have you tried other solutions for visualization other than webvowl? (Open source or not) because i just find it a bit time consuming to having to save your ontology, transform to json and then upload to webvowl whenever you want to check your ontology while designing it. 
Thank you in advance

Le jeu. 3 oct. 2019 à 17:14, Michael DeBellis <[hidden email]> a écrit :
Just a bit more on WebVOWL:  From the home page select "Run WebVOWL". Then look on the bottom where it says "Ontology". This is where I got confused at first. When you move the mouse over "Ontology" you will get a popup menu. My first thought was to click on the button that says "Upload" but before you do that you need to move the mouse over the field to the left of that button that says "Select Ontology File" and click on that. When you do that you will be prompted with the usual dialog of whatever OS you are using to navigate to a file. Use that to select the OWL file and then you can click the "Upload" button. 

A few more points: remember that WebVOWL of course doesn't do any reasoning on your ontology. So if you have rules or DL statements that cause a lot of inferred values all that will not be reflected if you just use the standard way of loading your ontology. Instead what you should do is first load your ontology into Protege, run the reasoner, and then use the "File>Export inferred axioms as ontology" option. Then use that exported file as the file you upload to WebVOWL so you can see all the inferred data as well. 

Also, there are a bunch of different WebVOWL options for pinning classes, determining the nesting level for the display, various filter options, etc. In my experience it takes a while of tweaking these different settings to figure out how they work and how to get graphs that are actually useful as opposed to "Gee how cool hundreds of connected bubbles bouncing around on the screen" which was my first impression. 

Michael

On Thu, Oct 3, 2019 at 4:20 AM Timothee Brochier <[hidden email]> wrote:
Dear Stanford Protégé team,

Thank you for this nice program, we started to use it here in my research group in Senegal (University Cheikh Anta Diop, Dakar), as a tool to build an ontology  to describe senegalese artisanal fisheries dynamics. I am myself not a specialist of this approach but I see a great potential and want to introduce the tool to our students.

My first question is about visualization : is there a way to make appear the individuals un the graphs? I noticed it is possible using VOWL but I did not manage to export ontology from Web Protégé to VOWL. Any suggestions about that?

Best regards,
Timothée Brochier,
UMMISCO - Dakar, Senegal

_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user
_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user
_______________________________________________
protege-user mailing list
[hidden email]
https://mailman.stanford.edu/mailman/listinfo/protege-user

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[hidden email]
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