Organic Data Science Framework - User contributions [en]

Special Information for Newcomers

2014-06-09T18:54:39Z

Paul: /* Unique proposition */

= Unique proposition =

Say something here about the unique proposition.

= Our Commitment to You =

* There is a subspace for your interest and expertise. Active subspaces are: ...
* Your page is always linked to activities of interest to you:
** Once you specify your expertise, your page is always linked to the subspaces relevant to you.
** Once you sign up for a task, your page shows links to the task and its status
* It is easy to learn the site, if you have any problems we have a permanent help desk available to you.
** We will help you learn by getting you involved with simple things first, and there will always be clear information about what is expected.

if you have any questions, please contact XXX.

= What we have been doing =

Say something here.

= What we plan to accomplish =

Say something here.

= How to get started =

Say something here.

=== Currently Active Tasks ===

* [[Lake_carbon_questions | Lake carbon questions]].
* [[Changing_Connectivity_in_the_Hydroscape | Modeling connectivity in the hydroscape]].
* [[Lake_carbon_questions | Science questions about lake carbon cycling]].
* The [[Lake_Organic_Carbon_Models | lake organic carbon models]].
* [[Document_PIHM_Model | Documentation for the PIHM model]].
* [[Lake_Modeling_Support | Lake modeling support]].
* [[Framework Design]]

* [[Setting up lake model for North Temperate Lakes]]
* [[Calibrate lake model]]

Lake carbon questions

2014-06-09T14:38:34Z

Paul:

[[Category:Answer]]

1. What are the sources and magnitudes of allochthonous organic carbon loads to lakes and how do they change over time scales of days to years?

Lake carbon questions

2014-06-09T14:36:06Z

Paul: Creating new page with Category: Answer

[[Category:Answer]]

Lake carbon questions

2014-06-09T13:54:42Z

Paul: Created page with "Questions about lake carbon cycling and the roles lakes play in catchments"

Questions about lake carbon cycling and the roles lakes play in catchments

Main Page

2014-06-09T13:53:01Z

Paul:

= What is Organic Data Science? =

We are investigating [[What_Is_Organic_Data_Science| Organic Data Science]], a new approach aimed to allow scientists to formulate and resolve science processes through an open framework that facilitates ad-hoc participation and entice collaborators based on attractive science goals. [[What_Is_Organic_Data_Science| Read more about Organic Data Science]].

= Contributing to Organic Data Science =

We are using a semantic wiki framework with significant extensions to structure collaboration processes.

[[Organic_Data_Science_through_a_Semantic_Wiki | Read more about how this framework works and how to participate and contribute]].

[[How_to_use_this_organic_data_science_wiki | Learn how to use this wiki]].

= Our Science Goal: The Age of Water and Carbon =

We focus on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, The Age of Water and Carbon, that melds theory and practice from limnology and hydrology within the new collaborative paradigm of [[Organic_Data_Science | Organic Data Science]]. We are integrating analytical frameworks from two communities – hydrology and isotope modeling in [http://criticalzone.org Critical Zone Observatories (CZOs)] and hydrodynamic water quality modeling from the [http://www.gleon.org Global Lake Ecological Observatory Network (GLEON)] – to quantify water and material fluxes from two research sites, the Shales Hills CZO and the GLEON member site, [http://www.lternet.edu/sites/ntl North Temperate Lakes LTER]. This foundation will serve as a nexus for participation by multiple communities and will seed the growth of additional science through shared ideas, knowledge, and data.

== Currently Active Tasks ==

* [[Changing_Connectivity_in_the_Hydroscape | Modeling connectivity in the hydroscape]].
* [[Lake_carbon_questions | Science questions about lake carbon cycling]].
* The [[Lake_Organic_Carbon_Models | lake organic carbon models]].
* [[Document_PIHM_Model | Documentation for the PIHM model]].
* [[Lake_Modeling_Support | Lake modeling support]].
* [[Framework Design]]

* [[Setting up lake model for North Temperate Lakes]]
* [[Calibrate lake model]]

== Today's Highlights ==

We are starting to describe contributors to the project, help us fill in the blanks:

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| format=template
| template=Researcher
| introtemplate=Researcher_Header
| outrotemplate=Researcher_Footer
| link=object
| default=No researchers are described in this site
}}

We are starting to describe models, help us fill in the blanks:

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

= Acknowledgments =

This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.

Main Page

2014-06-09T13:52:26Z

Paul:

= What is Organic Data Science? =

We are investigating [[What_Is_Organic_Data_Science| Organic Data Science]], a new approach aimed to allow scientists to formulate and resolve science processes through an open framework that facilitates ad-hoc participation and entice collaborators based on attractive science goals. [[What_Is_Organic_Data_Science| Read more about Organic Data Science]].

= Contributing to Organic Data Science =

We are using a semantic wiki framework with significant extensions to structure collaboration processes.

[[Organic_Data_Science_through_a_Semantic_Wiki | Read more about how this framework works and how to participate and contribute]].

[[How_to_use_this_organic_data_science_wiki | Learn how to use this wiki]].

= Our Science Goal: The Age of Water and Carbon =

We focus on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, The Age of Water and Carbon, that melds theory and practice from limnology and hydrology within the new collaborative paradigm of [[Organic_Data_Science | Organic Data Science]]. We are integrating analytical frameworks from two communities – hydrology and isotope modeling in [http://criticalzone.org Critical Zone Observatories (CZOs)] and hydrodynamic water quality modeling from the [http://www.gleon.org Global Lake Ecological Observatory Network (GLEON)] – to quantify water and material fluxes from two research sites, the Shales Hills CZO and the GLEON member site, [http://www.lternet.edu/sites/ntl North Temperate Lakes LTER]. This foundation will serve as a nexus for participation by multiple communities and will seed the growth of additional science through shared ideas, knowledge, and data.

== Currently Active Tasks ==

* [[Changing_Connectivity_in_the_Hydroscape | Modeling connectivity in the hydroscape]].
* [[Lake carbon questions | Science_questions_about_lake_carbon_cycling]].
* The [[Lake_Organic_Carbon_Models | lake organic carbon models]].
* [[Document_PIHM_Model | Documentation for the PIHM model]].
* [[Lake_Modeling_Support | Lake modeling support]].
* [[Framework Design]]

* [[Setting up lake model for North Temperate Lakes]]
* [[Calibrate lake model]]

== Today's Highlights ==

We are starting to describe contributors to the project, help us fill in the blanks:

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| format=template
| template=Researcher
| introtemplate=Researcher_Header
| outrotemplate=Researcher_Footer
| link=object
| default=No researchers are described in this site
}}

We are starting to describe models, help us fill in the blanks:

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

= Acknowledgments =

This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.

Main Page

2014-06-09T13:51:45Z

Paul:

= What is Organic Data Science? =

We are investigating [[What_Is_Organic_Data_Science| Organic Data Science]], a new approach aimed to allow scientists to formulate and resolve science processes through an open framework that facilitates ad-hoc participation and entice collaborators based on attractive science goals. [[What_Is_Organic_Data_Science| Read more about Organic Data Science]].

= Contributing to Organic Data Science =

We are using a semantic wiki framework with significant extensions to structure collaboration processes.

[[Organic_Data_Science_through_a_Semantic_Wiki | Read more about how this framework works and how to participate and contribute]].

[[How_to_use_this_organic_data_science_wiki | Learn how to use this wiki]].

= Our Science Goal: The Age of Water and Carbon =

We focus on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, The Age of Water and Carbon, that melds theory and practice from limnology and hydrology within the new collaborative paradigm of [[Organic_Data_Science | Organic Data Science]]. We are integrating analytical frameworks from two communities – hydrology and isotope modeling in [http://criticalzone.org Critical Zone Observatories (CZOs)] and hydrodynamic water quality modeling from the [http://www.gleon.org Global Lake Ecological Observatory Network (GLEON)] – to quantify water and material fluxes from two research sites, the Shales Hills CZO and the GLEON member site, [http://www.lternet.edu/sites/ntl North Temperate Lakes LTER]. This foundation will serve as a nexus for participation by multiple communities and will seed the growth of additional science through shared ideas, knowledge, and data.

== Currently Active Tasks ==

* [[Changing_Connectivity_in_the_Hydroscape | Modeling connectivity in the hydroscape]].
* [[Science_questions_about_lake_carbon_cycling | lake carbon questions]].
* The [[Lake_Organic_Carbon_Models | lake organic carbon models]].
* [[Document_PIHM_Model | Documentation for the PIHM model]].
* [[Lake_Modeling_Support | Lake modeling support]].
* [[Framework Design]]

* [[Setting up lake model for North Temperate Lakes]]
* [[Calibrate lake model]]

== Today's Highlights ==

We are starting to describe contributors to the project, help us fill in the blanks:

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| format=template
| template=Researcher
| introtemplate=Researcher_Header
| outrotemplate=Researcher_Footer
| link=object
| default=No researchers are described in this site
}}

We are starting to describe models, help us fill in the blanks:

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

= Acknowledgments =

This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.

Main Page

2014-06-09T13:43:19Z

Paul:

= What is Organic Data Science? =

We are investigating [[What_Is_Organic_Data_Science| Organic Data Science]], a new approach aimed to allow scientists to formulate and resolve science processes through an open framework that facilitates ad-hoc participation and entice collaborators based on attractive science goals. [[What_Is_Organic_Data_Science| Read more about Organic Data Science]].

= Contributing to Organic Data Science =

We are using a semantic wiki framework with significant extensions to structure collaboration processes.

[[Organic_Data_Science_through_a_Semantic_Wiki | Read more about how this framework works and how to participate and contribute]].

[[How_to_use_this_organic_data_science_wiki | Learn how to use this wiki]].

= Our Science Goal: The Age of Water and Carbon =

We focus on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, The Age of Water and Carbon, that melds theory and practice from limnology and hydrology within the new collaborative paradigm of [[Organic_Data_Science | Organic Data Science]]. We are integrating analytical frameworks from two communities – hydrology and isotope modeling in [http://criticalzone.org Critical Zone Observatories (CZOs)] and hydrodynamic water quality modeling from the [http://www.gleon.org Global Lake Ecological Observatory Network (GLEON)] – to quantify water and material fluxes from two research sites, the Shales Hills CZO and the GLEON member site, [http://www.lternet.edu/sites/ntl North Temperate Lakes LTER]. This foundation will serve as a nexus for participation by multiple communities and will seed the growth of additional science through shared ideas, knowledge, and data.

== Currently Active Tasks ==

* [[Changing_Connectivity_in_the_Hydroscape | Modeling connectivity in the hydroscape]].
* The [[Lake_Organic_Carbon_Models | lake organic carbon models]].
* [[Document_PIHM_Model | Documentation for the PIHM model]].
* [[Lake_Modeling_Support | Lake modeling support]].
* [[Framework Design]]

* [[Setting up lake model for North Temperate Lakes]]
* [[Calibrate lake model]]

== Today's Highlights ==

We are starting to describe contributors to the project, help us fill in the blanks:

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| format=template
| template=Researcher
| introtemplate=Researcher_Header
| outrotemplate=Researcher_Footer
| link=object
| default=No researchers are described in this site
}}

We are starting to describe models, help us fill in the blanks:

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

= Acknowledgments =

This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.

Main Page

2014-06-02T18:37:33Z

Paul: /* Currently Active Tasks */

= What is Organic Data Science? =

We are investigating [[What_Is_Organic_Data_Science| Organic Data Science]], a new approach aimed to allow scientists to formulate and resolve science processes through an open framework that facilitates ad-hoc participation and entice collaborators based on attractive science goals. [[What_Is_Organic_Data_Science| Read more about Organic Data Science]].

= Contributing to Organic Data Science =

We are using a semantic wiki framework with significant extensions to structure collaboration processes.

[[Organic_Data_Science_through_a_Semantic_Wiki | Read more about how this framework works and how to participate and contribute]].

[[How_to_use_this_organic_data_science_wiki | Learn how to use this wiki]].

= Our Science Goal: The Age of Water =

We focus on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, The Age of Water and Carbon, that melds theory and practice from limnology and hydrology within the new collaborative paradigm of [[Organic_Data_Science | Organic Data Science]]. We are integrating analytical frameworks from two communities – hydrology and isotope modeling in [http://criticalzone.org Critical Zone Observatories (CZOs)] and hydrodynamic water quality modeling from the [http://www.gleon.org Global Lake Ecological Observatory Network (GLEON)] – to quantify water and material fluxes from two research sites, the Shales Hills CZO and the GLEON member site, [http://www.lternet.edu/sites/ntl North Temperate Lakes LTER]. This foundation will serve as a nexus for participation by multiple communities and will seed the growth of additional science through shared ideas, knowledge, and data.

== Currently Active Tasks ==

* [[Changing_Connectivity_in_the_Hydroscape | Modeling connectivity in the hydroscape]].
* The [[Lake_Organic_Carbon_Models | lake organic carbon models]].
* [[Document_PIHM_Model | Documentation for the PIHM model]].
* [[Lake_Modeling_Support | Lake modeling support]].
* [[Framework Design]]

* [[Setting up lake model for North Temperate Lakes]]
* [[Calibrate lake model]]

== Today's Highlights ==

We are starting to describe contributors to the project, help us fill in the blanks:

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| default=No researchers are described in this site
}}

We are starting to describe models, help us fill in the blanks:

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

= Acknowledgments =

This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.

Talk:Bibliography

2014-04-28T21:59:51Z

Paul: Created page with "Cole, J., Caraco, N., Kling, G., & Kratz, T. (1994). Carbon dioxide supersaturation in the surface waters of lakes. Science, 265(5178), 1568–1570. Retrieved from http://www...."

Cole, J., Caraco, N., Kling, G., & Kratz, T. (1994). Carbon dioxide supersaturation in the surface waters of lakes. Science, 265(5178), 1568–1570. Retrieved from http://www.sciencemag.org/content/265/5178/1568.short

Cole, J. J., Prairie, Y. T., Caraco, N. F., McDowell, W. H., Tranvik, L. J., Striegl, R. G., … Melack, J. (2007). Plumbing the global carbon cycle: integrating inland waters into the terrestrial carbon budget. Ecosystems, 10(1), 172–185. doi:10.1007/s10021-006-9013-8

Einsele, G. (2001). Atmospheric carbon burial in modern lake basins and its significance for the global carbon budget. Global and Planetary Change, 30(3-4), 167–195. doi:10.1016/S0921-8181(01)00105-9

Hanson, P. C., Bade, D. L., Carpenter, S. R., & Kratz, T. K. (2003). Lake metabolism: Relationships with dissolved organic carbon and phosphorus. Limnology and Oceanography, 48(3), 1112–1119. doi:10.4319/lo.2003.48.3.1112

Hanson, P. C., Pollard, A. I., Bade, D. L., Predick, K., Carpenter, S. R., & Foley, J. A. (2004). A model of carbon evasion and sedimentation in temperate lakes. Global Change Biology, 10(8), 1285–1298. doi:10.1111/j.1365-2486.2004.00805.x

Jones, S., Solomon, C., & Weidel, B. (2012). Subsidy or subtraction: how do terrestrial inputs influence consumer production in lakes? Freshwater Reviews, 37–49. doi:10.1608/FRJ-5.1.475

Pace, M. L., Cole, J. J., Carpenter, S. R., Kitchell, J. F., Hodgson, J. R., Van de Bogert, M. C., … Bastviken, D. (2004). Whole-lake carbon-13 additions reveal terrestrial support of aquatic food webs. Nature, 427(6971), 240–243. doi:10.1038/nature02215.1.

Raymond, P. a., Hartmann, J., Lauerwald, R., Sobek, S., McDonald, C., Hoover, M., … Guth, P. (2013). Global carbon dioxide emissions from inland waters. Nature, 503(7476), 355–359. doi:10.1038/nature12760

Regnier, P., Friedlingstein, P., Ciais, P., Mackenzie, F. T., Gruber, N., Janssens, I. a., … Thullner, M. (2013). Anthropogenic perturbation of the carbon fluxes from land to ocean. Nature Geoscience, 6(8), 597–607. doi:10.1038/ngeo1830

Roehm, C. L., Prairie, Y. T., & del Giorgio, P. A. (2009). The pCO2 dynamics in lakes in the boreal region of northern Québec, Canada. Global Biogeochemical Cycles, 23(3), 1–9. doi:10.1029/2008GB003297

Sobek, S., Algesten, G., Bergstrom, A.-K., Jansson, M., & Tranvik, L. J. (2003). The catchment and climate regulation of pCO2 in boreal lakes. Global Change Biology, 9(4), 630–641. Retrieved from http://onlinelibrary.wiley.com/doi/10.1046/j.1365-2486.2003.00619.x/full

Stallard, R. (1998). Terrestrial sedimentation and the carbon cycle: Coupling weathering and erosion to carbon burial. Global Biogeochemical Cycles, 12(2), 231–257. Retrieved from http://onlinelibrary.wiley.com/doi/10.1029/98GB00741/full

Tranvik, L. J., Downing, J. A., Cotner, J. B., Loiselle, S. A., Striegl, R. G., Ballatore, T. J., … Weyhenmeyer, G. A. (2009). Lakes and reservoirs as regulators of carbon cycling and climate. Limnology and Oceanography, 54(6), 2298–2314. Retrieved from http://cat.inist.fr/?aModele=afficheN&cpsidt=22279829

Wilkinson, G. M., Pace, M. L., & Cole, J. J. (2013). Terrestrial dominance of organic matter in north temperate lakes. Global Biogeochemical Cycles, 27(November 2012), n/a–n/a. doi:10.1029/2012GB004453

Bibliography

2014-04-28T21:59:18Z

Paul: Creating new page with Category: Answer

[[Category:Answer]]

Talk:Analytical model

2014-04-28T21:58:02Z

Paul: Created page with "1. Overview of strategy a. Numerical simulation to solve time dynamics 2. Link to GLM-FABM in UWA: [http://aed.see.uwa.edu.au/research/models/GLM/ GLM-FABM Development site] ..."

1. Overview of strategy
a. Numerical simulation to solve time dynamics

2. Link to GLM-FABM in UWA: [http://aed.see.uwa.edu.au/research/models/GLM/ GLM-FABM Development site]

3. Link to Github code base: [https://github.com/GLEON GLEON Code base]

4. Parameter tables

Analytical model

2014-04-28T21:55:39Z

Paul: Creating new page with Category: Model

[[Category:Model]]

File talk:Lake OC Conceptual Model.png

2014-04-28T21:49:30Z

Paul:

(From Hanson et al. in review) Conceptual diagram of a lake, showing dominant OC fluxes (black arrows). The mass balance equation represents the dynamical lake OC system as a function of inputs, transformations, and outputs. GW=ground water; SW=surface water; GPP=gross primary production; R=organic carbon mineralization.

File talk:Lake OC Conceptual Model.png

2014-04-28T21:48:52Z

Paul:

[[File:'Lake OC Conceptual Model.png']]

(From Hanson et al. in review) Conceptual diagram of a lake, showing dominant OC fluxes (black arrows). The mass balance equation represents the dynamical lake OC system as a function of inputs, transformations, and outputs. GW=ground water; SW=surface water; GPP=gross primary production; R=organic carbon mineralization.

File talk:Lake OC Conceptual Model.png

2014-04-28T21:48:00Z

Paul:

[[File:Lake OC Conceptual model.png]]

(From Hanson et al. in review) Conceptual diagram of a lake, showing dominant OC fluxes (black arrows). The mass balance equation represents the dynamical lake OC system as a function of inputs, transformations, and outputs. GW=ground water; SW=surface water; GPP=gross primary production; R=organic carbon mineralization.

File talk:Lake OC Conceptual Model.png

2014-04-28T21:47:14Z

Paul: Created page with "(From Hanson et al. in review) Conceptual diagram of a lake, showing dominant OC fluxes (black arrows). The mass balance equation represents the dynamical lake OC system as a ..."

File:Lake OC Conceptual Model.png

2014-04-28T21:44:36Z

Paul: Conceptual model of lake organic carbon cycling (Hanson et al. in review).

Conceptual model of lake organic carbon cycling (Hanson et al. in review).

Talk:Why lakes and organic carbon cycling

2014-04-28T21:38:44Z

Paul: Created page with "From Hanson et al., in review: Lakes are important sites for organic carbon storage in sediments and for transfer of CO2 to the atmosphere with annual global fluxes of petagra..."

From Hanson et al., in review: Lakes are important sites for organic carbon storage in sediments and for transfer of CO2 to the atmosphere with annual global fluxes of petagrams of carbon (J. J. Cole et al., 2007; Raymond et al., 2013; Tranvik et al., 2009). The recognition that lakes are important sites for OC cycling has sparked discussions of altering broad-scale C cycling frameworks to include inland waters (Regnier et al., 2013). However, a dearth of ecosystem-scale budgets for lake OC limits inclusion of lakes in C cycling assessments. As a result, dissonant views have emerged about both the roles lakes play in processing catchment OC and the consequences of that load for lake processes. For example: while lakes store large quantities of OC (Einsele, 2001; Stallard, 1998), they also tend to be sources of CO2 to the atmosphere (J. Cole, Caraco, Kling, & Kratz, 1994; Roehm, Prairie, & del Giorgio, 2009; Sobek, Algesten, Bergstrom, Jansson, & Tranvik, 2003); the euphotic zone of a lake may be net autotrophic (Paul C. Hanson, Bade, Carpenter, & Kratz, 2003), while the lake as a whole may be net heterotrophic (P.C. Hanson et al., 2004); the particulate fraction of water column OC pool may be autochthonous in origin, while the dissolved fraction is primarily allochthonous (Wilkinson, Pace, & Cole, 2013); allochthonous OC subsidizes aquatic food webs (Pace et al., 2004), but the extent of that subsidy is debated (Jones, Solomon, & Weidel, 2012).

Why lakes and organic carbon cycling

2014-04-28T21:37:25Z

Paul: Creating new page with Category: Answer

[[Category:Answer]]

Lake OC in R

2013-12-03T19:27:33Z

Paul: Added PropertyValue: Language = R

[[Category:Model]]


{{#set:
Author=Paul_Hanson |
Language=R |
Software license=Open }}

Lake OC in R

2013-12-03T19:27:13Z

Paul: Added PropertyValue: Software license = Open

[[Category:Model]]


{{#set:
Author=Paul_Hanson |
Software license=Open }}

Lake OC in R

2013-12-03T19:26:55Z

Paul: Added PropertyValue: Author = Paul Hanson

[[Category:Model]]


{{#set:|
Author=Paul_Hanson }}

Lake OC in R

2013-12-03T19:24:54Z

Paul:

[[Category:Model]]

Lake OC in R

2013-12-03T19:23:43Z

Paul: Creating new page with Category: Component

[[Category:Component]]

Lake OC Code

2013-12-03T19:22:06Z

Paul: Added PropertyValue: Author = Paul Hanson

[[Category:Model]]


{{#set:|
Author=Paul_Hanson }}

Lake OC Code

2013-12-03T19:21:51Z

Paul: Creating new page with Category: Model

[[Category:Model]]

Lake OC in R

2013-12-03T19:20:25Z

Paul: Creating new page with Category: Model

[[Category:Model]]

Main Page

2013-12-03T19:17:27Z

Paul:

== Today's Highlights ==

We are starting to describe contributors to the project, help us fill in the blanks:

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| default=No researchers are described in this site
}}

We are starting to describe models, help us fill in the blanks:

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

== Our Science Goal: The Age of Water ==

Our starting point is the [[Changing_Connectivity_in_the_Hydroscape | Changing Connectivity in the Hydroscape]]

Our ecology starting point is [[Lake_Organic_Carbon_Models | Lake Organic Carbon Models]]

== What is Organic Data Science ==

Text to be added.

== A Semantic Wiki for Organic Data Science ==

Text to be added.

=== Structuring Content in a Semantic Wiki ===

To structure the content of this wiki, we use a semantic wiki framework.
We use an extension of [http://semantic-mediawiki.org/ Semantic MediaWiki] that enables contributors to use structured semantic properties to describe the contents of the wiki.

One way in which this wiki structures content is though pre-defined categories. Pages can have special categories, which gives the wiki pages a pre-defined semantic structure. Special categories include Task, Answer, and Data.

In addition, each page has a section called "Structured Properties", where contributors can specify properties and values of the topic of the page. Any contributor can define new properties on the fly. Any contributor can change an existing property by one that is used elsewhere, effectively normalizing the use of the property across pages and therefore across objects.

Another extension in this wiki is that contributor credit is tracked and shown. At the bottom of each page, the contributors to that page are shown together with the details of their contributions to that page. Contributors can also have their own pages, which include any background information they wish to share, and where the edits that they have made are automatically summarized and shown.

* An example of a task page: [[Document_PIHM_Model | Document PIHM Model]]
* An example of a data page: [[Knb-lter-ntl.87.8 | knb-lter-ntl.87.8]]
* An example of a researcher page: [[Jordan_Read | Jordan Read]]
* An example of a model software page: [[PIHM_Software | PIHM Software]]

A great way to start is to create your own page! Just type your name on the "Search" box, agree to create a page, save it empty, and then add properties imitating the example researcher page above.

=== Using Structured Content to Dynamically Create Sections of Wiki Pages ===

Those properties can then be used to answer queries that aggregate automatically those properties and pages. Below are some examples of how a query can be stated using those structured properties, and the automatically generated table that answers the query. These queries can be used to create dynamically generated content.

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| default=No researchers are described in this site
}}

=== Accessing Structured Content Externally ===

The structured content in this semantic wiki is represented with the [http://www.w3.org/RDF/ W3C RDF] semantic representation standard.
This allows others to access and import the content of this wiki into their applications.
There is extensive documentation about this '''[http://skc.isi.edu/odp/api.php API here]'''.

=== How to Add Text to a Wiki Page ===

In addition to structured properties, this wiki also allows adding regular wiki text and content. When editing, and before adding any text, click on the "Save Page" button at the bottom. After that select a category. Then edit.
See the [[Quick_Guide_to_Using_a_Wiki | Quick Guide to Using a Wiki]], or the detailed [//meta.wikimedia.org/wiki/Help:Contents User's Guide].

Main Page

2013-12-03T19:14:00Z

Paul:

== Today's Highlights ==

We are starting to describe contributors to the project, help us fill in the blanks:

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| default=No researchers are described in this site
}}

We are starting to describe models, help us fill in the blanks:

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

== Our Science Goal: The Age of Water ==

Our starting point is the [[Changing_Connectivity_in_the_Hydroscape | Changing Connectivity in the Hydroscape]]
Our ecology starting point is [[Lake_Organic_Carbon_Models | Lake Organic Carbon Models]]

== What is Organic Data Science ==

Text to be added.

== A Semantic Wiki for Organic Data Science ==

Text to be added.

=== Structuring Content in a Semantic Wiki ===

To structure the content of this wiki, we use a semantic wiki framework.
We use an extension of [http://semantic-mediawiki.org/ Semantic MediaWiki] that enables contributors to use structured semantic properties to describe the contents of the wiki.

One way in which this wiki structures content is though pre-defined categories. Pages can have special categories, which gives the wiki pages a pre-defined semantic structure. Special categories include Task, Answer, and Data.

In addition, each page has a section called "Structured Properties", where contributors can specify properties and values of the topic of the page. Any contributor can define new properties on the fly. Any contributor can change an existing property by one that is used elsewhere, effectively normalizing the use of the property across pages and therefore across objects.

Another extension in this wiki is that contributor credit is tracked and shown. At the bottom of each page, the contributors to that page are shown together with the details of their contributions to that page. Contributors can also have their own pages, which include any background information they wish to share, and where the edits that they have made are automatically summarized and shown.

* An example of a task page: [[Document_PIHM_Model | Document PIHM Model]]
* An example of a data page: [[Knb-lter-ntl.87.8 | knb-lter-ntl.87.8]]
* An example of a researcher page: [[Jordan_Read | Jordan Read]]
* An example of a model software page: [[PIHM_Software | PIHM Software]]

A great way to start is to create your own page! Just type your name on the "Search" box, agree to create a page, save it empty, and then add properties imitating the example researcher page above.

=== Using Structured Content to Dynamically Create Sections of Wiki Pages ===

Those properties can then be used to answer queries that aggregate automatically those properties and pages. Below are some examples of how a query can be stated using those structured properties, and the automatically generated table that answers the query. These queries can be used to create dynamically generated content.

{{ #ask: [[Is a::model]]
| ?author
| ?software_license
| ?language
| default=No models are described in this site
}}

{{ #ask: [[Is a::researcher]]
| ?expertise
| ?affiliation
| default=No researchers are described in this site
}}

=== Accessing Structured Content Externally ===

The structured content in this semantic wiki is represented with the [http://www.w3.org/RDF/ W3C RDF] semantic representation standard.
This allows others to access and import the content of this wiki into their applications.
There is extensive documentation about this '''[http://skc.isi.edu/odp/api.php API here]'''.

=== How to Add Text to a Wiki Page ===

In addition to structured properties, this wiki also allows adding regular wiki text and content. When editing, and before adding any text, click on the "Save Page" button at the bottom. After that select a category. Then edit.
See the [[Quick_Guide_to_Using_a_Wiki | Quick Guide to Using a Wiki]], or the detailed [//meta.wikimedia.org/wiki/Help:Contents User's Guide].