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= What is Organic Data Science? =  
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== Our Science Goal: The Age of Water and Carbon ==
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[[File:VirtualOverlayNetworks.jpg|thumb|left|upright|Organic team science would enable the creation of “virtual overlay networks” over existing cyberinfrastructure and other related activities.]]
  
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. Organic Data Science]] allows scientists to formulate and resolve science processes through an open framework that facilitates ad-hoc participation and entice collaborators based on attractive science goals.
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This study focuses on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, <i>The Age of Water and Carbon,</i> that melds  theory and practice from limnology and hydrology within the 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.  
  
Accomplishing this requires three elements: a science approach to tackle the problem of the age of water, a technical substrate that facilitates transdisciplinary collaborations, and a social approach to engage the community:
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An initial goal is a retrospective analysis based on a fully-coupled catchment-lake-groundwater hydrodynamic model parameterized from national data, calibrated with local data, and implemented to run climate and landuse change scenarios. The target catchments for the initial catchment-lake isoscapes are Trout Lake (Wisconsin) and Shaver Creek (Pennsylvania). As water age and the associated flowpaths are identified, scientists will use that information to infer the sources of organic carbon to lake-catchment ecosystems, their fluxes from the landscape to lakes, the fates as storage, conversion or export, and understanding of the uncertainties surrounding these quantities.  Thus, an outcome of this work will be the first-ever dynamical model for lake water, energy and carbon cycling constrained by a fully coupled catchment mass balance including the effects of the groundwater basin.
  
#<i>Technical approach: Human Computing to Support Organic Team Science.</i>  We are pursuing a social computing approach that takes into account human aspects such as incentives and participation, while providing the fabric for representing and coordinating tasks involved in accomplishing science goals. Our approach will openly expose science tasks, facilitating inspection and engagement of new potential contributors. The collaboration will grow in an organic way, drawing in people and other contributions from existing data providers and cyberinfrastruture resources. 
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=== Models Employed ===
# <i>Science approach: Focus on the Lake-Catchment Isoscape.</i> We intend to apply the notion of a catchment isoscape for stable isotopes of water to examine the implication of age and residence time on biogeochemical cycles of coupled catchment-lake systems. This will require integrating the analytical frameworks developed within 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 with existing data and resources from two research sites, the [http://criticalzone.org/shale-hills/ Shale 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 in the proposed science and will seed the growth of additional science through shared ideas, knowledge, and data.
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'''Catchment:''' [http://www.organicdatascience.org/ageofwater/index.php/Select_core_lake_and_catchment_models Penn State Integrated Hydrologic Model (PIHM)]
# <i>Social approach: Engaging the Community.</i>  Tremendous potential resides in the collective resources of the highly distributed science community. We can realize that potential by creating an exciting and engaging environment in which individuals can contribute their unique resources, and gain in return, additional resources, including knowledge, credit, and an expanded network.  We are collaborating with investigators from diverse areas of research committed to supporting information sharing for advancing Earth and environmental sciences on a scale much larger than we could accomplish individually or even through any one discipline.
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<br>'''Lake:''' [http://www.organicdatascience.org/ageofwater/index.php/Select_core_lake_and_catchment_models General Lake Model (GLM)]
  
<b><i>[[Structuring_Content_in_a_Semantic_Wiki | Read more about how to participate and contribute]].</i></b>
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== The Online Framework ==
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The science-driven demands of this research project have motivated the assembly of community-level resources distributed amongst institutions. The complex suite of resources, including data sets, computer models, computing resources, or technological staff must be coordinated and directed toward a common goal.  
  
This is a preliminary article about this work:
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The organic data science platform is a structured environment that can handle this complexity. By documenting the scientific progress, unresolved tasks that must be undertaken are made clear, both as a reminder to the principal investigators, but also to new members who want to contribute. The wiki provides a legacy of documentation, and a trail of how results were obtained. Ultimately, it is envisioned to lead to better scientific products representative of diverse contributions from both the hydrology and limnology communities.
  
* <b>[http://www.isi.edu/~gil/papers/gil-hanson-lisc12.pdf “Organic Data Sharing: A Novel Approach to Scientific Data Sharing.”]</b> Gil, Y.; Ratnakar, V.; and Hanson, P. In Second International Workshop on Linked Science: Tackling Big Data (LISC), held in conjunction with the International Semantic Web Conference (ISWC), Boston, MA, 2012. Available as a [http://www.isi.edu/~gil/papers/gil-hanson-lisc12.pdf preprint].
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<b>Organic Data Science</b>. [http://www.organicdatascience.org See this site for more information about this framework].
  
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== Ongoing Science Activities ==
  
<b><i>[[What_Is_Organic_Data_Science| Read more about Organic Data Science]].</i></b>
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# [[Develop a computational model for water and carbon isotopes in lake-catchment systems]]
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# [[Select core lake and catchment models]]
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# [[Implement the catchment model for North Temperate Lakes]]
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# [[Implement the lake model for North Temperate Lakes]]
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# [[Couple the lake and catchment models]]
  
= Our Science Goal: The Age of Water and Carbon =  
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== Leadership Team ==
  
This study focuses on long-standing problems of coupled water and carbon budgets through development of a new scientific paradigm, <i>The Age of Water and Carbon,</i> 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. <b><i>[[Age_of_Water:_Example| Read more about Modeling the Age of Water and Carbon in Lake-Catchment Systems]].</i></b>  or <b><i>[[PIHM_Software| Read more about the PIHM catchment model]].</i></b>
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[[File:LeadTeam.JPG|400px|G16 Workshop Leadership Team|border]]
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<br>(Left to Right) Jordan Read, Lele Shu, Chris Duffy, Paul Hanson, Hilary Dugan, Craig Snortheim, Gopal Bhatt
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<br>(Not pictured) Yolanda Gil
  
= Today's Highlights =
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= Contributing and Participating =
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<b>[[Contributors | There is a growing set of contributors to the project]].</b>
  
<b>Browse through some of the currently active tasks:</b>
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We welcome new members to the project. By contributing you can:
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#Become part of a community that works on large science problems
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#Become involved in science projects that would otherwise be impractical
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#Be more efficient in your workflow
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#Learn about tools that otherwise may seem unapproachable
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#Give direction to projects
  
* [[Implement_Catchment_Model | Set up the Catchment Hydrodynamic Model at Field Sites]].
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The contents of this wiki are accessible to everyoneIf you would like to contribute new content, please contact us to obtain an account by emailing us at <b>organic.data.science@gmail.com.</b>
* [[Implement_Lake_Model | Set up the Lake Hydrodynamic Model at Field Sites]].
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* [[Develop_Lake_Catchment_Model | Develop Coupled Lake - Catchment Hydrodynamic Model]].
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* [[Calibrate lake and catchment models]]
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* [[Develop_Age_Model | Develop New Theory for Age of Water and Carbon in Lake-Catchments ]].
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* [[Lake_carbon_questions | Lake carbon questions]].
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* The [[Lake_Organic_Carbon_Models | lake organic carbon models]].
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* [[Document_PIHM_Model | Documentation for the PIHM model]].
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* [[Lake_Modeling_Support | Lake modeling support]].
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* [[Framework Design]]
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* [[Setting up lake model for North Temperate Lakes]]
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=Software=
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<b>We are starting to describe models, help us fill in the blanks:</b>
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{{ #ask: [[Is a::model]]
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| ?author
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| ?software_license
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| ?language
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| default=No models are described in this site
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}}
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= Contributing to Organic Data Science =
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<b>We have [[Special Information for Newcomers]] to catch up with what we have been doing so far and our plans for the future.  </b>
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We are using a semantic wiki framework with significant extensions to structure collaboration processes<b><i>[[Organic_Data_Science_through_a_Semantic_Wiki | Read more about how this framework works and how to participate and contribute]].</i></b>
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<b>[[How_to_use_this_organic_data_science_wiki | Get an account, and learn how to use this wiki]].</b>
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<b>There is a growing set of contributors to the project. Here are some highlights about their expertise and affiliations. You can help us fill in the empty cells by editing their individual pages, once you do that the information will be shown here:</b>
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{{ #ask: [[Is a::researcher]]
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| ?expertise
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| ?affiliation
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| format=template
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| template=Researcher
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| introtemplate=Researcher_Header
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| outrotemplate=Researcher_Footer
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| link=object
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| default=No researchers are described in this site
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}}
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= Acknowledgments =
 
= Acknowledgments =
  
 
This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.
 
This work is supported by the National Science Foundation through the INSPIRE program with grant number IIS-1344272.

Latest revision as of 07:41, 6 November 2014

Our Science Goal: The Age of Water and Carbon

Organic team science would enable the creation of “virtual overlay networks” over existing cyberinfrastructure and other related activities.

This study focuses 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 paradigm of Organic Data Science. We are integrating analytical frameworks from two communities – hydrology and isotope modeling in Critical Zone Observatories (CZOs) and hydrodynamic water quality modeling from the 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, 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.

An initial goal is a retrospective analysis based on a fully-coupled catchment-lake-groundwater hydrodynamic model parameterized from national data, calibrated with local data, and implemented to run climate and landuse change scenarios. The target catchments for the initial catchment-lake isoscapes are Trout Lake (Wisconsin) and Shaver Creek (Pennsylvania). As water age and the associated flowpaths are identified, scientists will use that information to infer the sources of organic carbon to lake-catchment ecosystems, their fluxes from the landscape to lakes, the fates as storage, conversion or export, and understanding of the uncertainties surrounding these quantities. Thus, an outcome of this work will be the first-ever dynamical model for lake water, energy and carbon cycling constrained by a fully coupled catchment mass balance including the effects of the groundwater basin.

Models Employed

Catchment: Penn State Integrated Hydrologic Model (PIHM)
Lake: General Lake Model (GLM)

The Online Framework

The science-driven demands of this research project have motivated the assembly of community-level resources distributed amongst institutions. The complex suite of resources, including data sets, computer models, computing resources, or technological staff must be coordinated and directed toward a common goal.

The organic data science platform is a structured environment that can handle this complexity. By documenting the scientific progress, unresolved tasks that must be undertaken are made clear, both as a reminder to the principal investigators, but also to new members who want to contribute. The wiki provides a legacy of documentation, and a trail of how results were obtained. Ultimately, it is envisioned to lead to better scientific products representative of diverse contributions from both the hydrology and limnology communities.

Organic Data Science. See this site for more information about this framework.

Ongoing Science Activities

  1. Develop a computational model for water and carbon isotopes in lake-catchment systems
  2. Select core lake and catchment models
  3. Implement the catchment model for North Temperate Lakes
  4. Implement the lake model for North Temperate Lakes
  5. Couple the lake and catchment models

Leadership Team

G16 Workshop Leadership Team
(Left to Right) Jordan Read, Lele Shu, Chris Duffy, Paul Hanson, Hilary Dugan, Craig Snortheim, Gopal Bhatt
(Not pictured) Yolanda Gil

Contributing and Participating

There is a growing set of contributors to the project.

We welcome new members to the project. By contributing you can:

  1. Become part of a community that works on large science problems
  2. Become involved in science projects that would otherwise be impractical
  3. Be more efficient in your workflow
  4. Learn about tools that otherwise may seem unapproachable
  5. Give direction to projects

The contents of this wiki are accessible to everyone. If you would like to contribute new content, please contact us to obtain an account by emailing us at organic.data.science@gmail.com.

Acknowledgments

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

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