Notice: this Wiki will be going read only early in 2024 and edits will no longer be possible. Please see: https://gitlab.eclipse.org/eclipsefdn/helpdesk/-/wikis/Wiki-shutdown-plan for the plan.
Difference between revisions of "STEM"
(→Introductory Resources) |
|||
(39 intermediate revisions by 2 users not shown) | |||
Line 4: | Line 4: | ||
| __TOC__ | | __TOC__ | ||
|} | |} | ||
+ | |||
+ | == '''Ebola Community Efforts''' == | ||
+ | ==== [[Weekly Community Ebola Modeling Phone Call]] ==== | ||
+ | ==== [[Ebola Models]] ==== | ||
+ | ==== [https://wiki.eclipse.org/Ebola_How_To How to install the Ebola models]==== | ||
+ | ==== Literature [[Ebola References]]==== | ||
+ | ==== Data [[Ebola Reference Data]]==== | ||
+ | ==== Please sign up for the [https://dev.eclipse.org/mailman/listinfo/stem-ebola stem-ebola mailing list]==== | ||
The '''Spatio-Temporal Epidemiological Modeler (STEM)''' is a tool designed to help scientists and public health officials create and use models of emerging infectious diseases. STEM uses mathematical models of diseases (based on differential equations) to simulate the development or evolution of a disease in space and time (e.g., avian flu or salmonella). These models could aid in understanding, and potentially preventing, the spread of such diseases. STEM also comes pre-configured with a vast amount of reference or denominator data for the entire world. By using and extending the data and models in STEM it is possible to rapidly prototype and test models for emerging infectious disease. STEM also provides tools to help you compare and validate your models. As an open source project, the ultimate goal of STEM is to support and encourage a community of scientists that not only use STEM as a tool but also contribute back to it. STEM is designed so that models and scenarios can be easily shared, extended, and built upon. | The '''Spatio-Temporal Epidemiological Modeler (STEM)''' is a tool designed to help scientists and public health officials create and use models of emerging infectious diseases. STEM uses mathematical models of diseases (based on differential equations) to simulate the development or evolution of a disease in space and time (e.g., avian flu or salmonella). These models could aid in understanding, and potentially preventing, the spread of such diseases. STEM also comes pre-configured with a vast amount of reference or denominator data for the entire world. By using and extending the data and models in STEM it is possible to rapidly prototype and test models for emerging infectious disease. STEM also provides tools to help you compare and validate your models. As an open source project, the ultimate goal of STEM is to support and encourage a community of scientists that not only use STEM as a tool but also contribute back to it. STEM is designed so that models and scenarios can be easily shared, extended, and built upon. | ||
Line 39: | Line 47: | ||
*[[STEM Installation Guide|Installing the STEM Application]] | *[[STEM Installation Guide|Installing the STEM Application]] | ||
+ | *[[STEM Overview of the STEM UI|Overview of the STEM UI and menu items ''(new)'']] | ||
*[[STEM Addons|Installing Additional Features]] | *[[STEM Addons|Installing Additional Features]] | ||
*[[Sample Projects available for Download|Sample Projects (Downloadable Scenarios)]] | *[[Sample Projects available for Download|Sample Projects (Downloadable Scenarios)]] | ||
Line 57: | Line 66: | ||
| | | | ||
*'''[[Creating a STEM Scenario]]''' '''step by step''' | *'''[[Creating a STEM Scenario]]''' '''step by step''' | ||
− | *'''[[How_scenarios_are_structured| | + | *'''[[How_scenarios_are_structured| Scenario Structure: Tutorial with Templates]]''' |
#[[How_scenarios_are_structured#Template_for_a_Basic_Scenario_with_a_Human_Disease|Model with Human-Human Transmission]] | #[[How_scenarios_are_structured#Template_for_a_Basic_Scenario_with_a_Human_Disease|Model with Human-Human Transmission]] | ||
#[[How_scenarios_are_structured#Template_for_a_Food_Borne_Disease_Scenario|Model of Food Borne disease]] | #[[How_scenarios_are_structured#Template_for_a_Food_Borne_Disease_Scenario|Model of Food Borne disease]] | ||
Line 80: | Line 89: | ||
#[[Importing Data from Files]] | #[[Importing Data from Files]] | ||
#[[STEM Loggers|Simulation Data Logging]] | #[[STEM Loggers|Simulation Data Logging]] | ||
+ | #[[Visualizing STEM Simulations with Google Earth]] | ||
*'''''(new)'' Automated Model Creation''' | *'''''(new)'' Automated Model Creation''' | ||
Line 122: | Line 132: | ||
==== STEM Solvers ==== | ==== STEM Solvers ==== | ||
*Available [[STEM_Solvers|Solvers]] | *Available [[STEM_Solvers|Solvers]] | ||
− | ** | + | **STEM Native Solvers |
− | + | **Apache Common Math Solvers | |
− | + | **Stochastic Solver | |
− | + | ||
− | + | ||
− | + | ||
=== Epidemiological Modeling === | === Epidemiological Modeling === | ||
|- | |- | ||
Line 137: | Line 145: | ||
#[[STEM_Population_Models#Standard_Population_Model|Standard Populations]] | #[[STEM_Population_Models#Standard_Population_Model|Standard Populations]] | ||
#[[STEM_Population_Models#Advanced_Models|Insect Vectors]] | #[[STEM_Population_Models#Advanced_Models|Insect Vectors]] | ||
− | #[[STEM_Population_Models#Seasonal_Migratory_Population_Model|Migratory Birds | + | #[[STEM_Population_Models#Seasonal_Migratory_Population_Model|Migratory Birds]] |
#[[STEM_Population_Models#Multipopulation_Models|Demographic Models (and Aging)]] | #[[STEM_Population_Models#Multipopulation_Models|Demographic Models (and Aging)]] | ||
− | * | + | *[[STEM Food and Food Borne Disease|Food Borne Disease Models]] |
#[[Sample_Projects_available_for_Download#1._Beef_Production|Beef Production Example]] | #[[Sample_Projects_available_for_Download#1._Beef_Production|Beef Production Example]] | ||
#[[Sample_Projects_available_for_Download#2._A_scenario_for_modelling_the_transmission_of_Salmonella_to_pigs.2C_pork_and_humans|Salmonella in Pork Example]] | #[[Sample_Projects_available_for_Download#2._A_scenario_for_modelling_the_transmission_of_Salmonella_to_pigs.2C_pork_and_humans|Salmonella in Pork Example]] | ||
Line 156: | Line 164: | ||
''Please also see our [http://www.eclipse.org/stem website]'' and [[Whats New in STEM|What's New in STEM]] | ''Please also see our [http://www.eclipse.org/stem website]'' and [[Whats New in STEM|What's New in STEM]] | ||
− | ====V2.0. | + | ====Next Release To Come October 22, 2014==== |
− | + | ||
+ | ====V2.0.2 Now Available==== | ||
* Bug Fixes | * Bug Fixes | ||
− | * | + | * Updated Dengue Model and Scenario |
− | + | * New Campylobacter Scenario | |
− | * New | + | |
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | ====... | + | ====V2.0.1 Included==== |
+ | * Bug Fixes | ||
+ | * Updated Code Generator | ||
+ | * New Campylobacter Model and Documentation | ||
+ | * New Dengue Model and Scenario | ||
+ | |||
+ | ====V2.0.0 Included==== | ||
+ | * Bug Fixes | ||
+ | * Performance Improvements | ||
+ | * New Stochastic Model Solver | ||
+ | * Draggable Solver Objects | ||
+ | * Visual Editor (Integrated UI for creating new models of disease including domain specific language for epi modeling) | ||
+ | * New Measles Model | ||
+ | * Directionally Biased Mixing Model | ||
+ | * New Model Generator (Makes it easy for domain experts to create new STEM Models--no programming required!!) | ||
+ | * New Apache Library | ||
+ | |||
+ | ====...Future Features==== | ||
* Running Distributed STEM | * Running Distributed STEM | ||
====Release Engineering==== | ====Release Engineering==== | ||
− | STEM releases are created by the team of STEM committers and uploaded | + | STEM releases are created by the team of STEM committers and uploaded to Eclipse on a regular basis. |
− | + | ||
− | to Eclipse on a regular basis. | + | Documentation for the process may be found on the [[STEM Releng]] page. |
− | Documentation for the process may be found | + | |
− | + | ||
− | on the [[STEM Releng]] page. | + | |
|} | |} | ||
Revision as of 19:53, 9 October 2014
Ebola Community Efforts
Weekly Community Ebola Modeling Phone Call
Ebola Models
How to install the Ebola models
Literature Ebola References
Data Ebola Reference Data
Please sign up for the stem-ebola mailing list
The Spatio-Temporal Epidemiological Modeler (STEM) is a tool designed to help scientists and public health officials create and use models of emerging infectious diseases. STEM uses mathematical models of diseases (based on differential equations) to simulate the development or evolution of a disease in space and time (e.g., avian flu or salmonella). These models could aid in understanding, and potentially preventing, the spread of such diseases. STEM also comes pre-configured with a vast amount of reference or denominator data for the entire world. By using and extending the data and models in STEM it is possible to rapidly prototype and test models for emerging infectious disease. STEM also provides tools to help you compare and validate your models. As an open source project, the ultimate goal of STEM is to support and encourage a community of scientists that not only use STEM as a tool but also contribute back to it. STEM is designed so that models and scenarios can be easily shared, extended, and built upon.
STEM Documentation
|
| ||||
|
Disclaimer
Click on the header for this section to view the Disclaimer.