1. Home
  2. Workflows

Workflows

Search filter terms
Filter by type
Filter by tag
Filter by user
Filter by licence
by-sa
15
Filter by group
BioVel Workshop
15
Results per page:
Sort by:
Showing 15 results. Use the filters on the left and the search box below to refine the results.
Licence: by-sa Group: BioVel Workshop
Remove all filters
Taverna 2
Uploader
3194?size=60x60 Hu Ferenc HORVATH
Project Biovel

Workflow Biome-BGC ESI version 1.4.1 (3)

Thumb
Biome-BGC is a process-based biogeochemical model that can be used to simulate carbon, nitrogen and water fluxes of different terrestrial ecosystems. The model can help us to quantify a broad range of ecosystem service indicators. These newly developed measures include: annual wood increment, yearly production of grasslands or croplands, total average carbon stock, annual evapotranspiration, damping of ecosystem daily water outflow, living and dead biomass protecting the soil against erosion,...

Created: 2013-08-12 | Last updated: 2014-10-04

Credits: User Ferenc HORVATH User Dora Krasser User Peter Ittzes Network-member BioVeL

Taverna 2
Uploader
3194?size=60x60 Hu Ferenc HORVATH
Project Biovel

Workflow Biome-BGC CARBON 1.2 (4)

Thumb
Biome-BGC is a process-based biogeochemical model that can be used to simulate carbon, nitrogen and water fluxes of different terrestrial ecosystems. A new version of the model, called Biome-BGC MuSo was developed to perform more realistic simulations in terms of soil hydrology, and improved ecosystem management options essentially (Hidy et al. 2012; Hidy & Barcza 2014). The Biome-BGC CARBON service executes a single simulation run at a given geographic location under that distinctive environ...

Created: 2013-06-04 | Last updated: 2015-06-12

Credits: User Ferenc HORVATH User Dora Krasser User Peter Ittzes User Zoltan BARCZA Network-member BioVeL

Attributions:

Taverna 2
Uploader
3194?size=60x60 Hu Ferenc HORVATH
Project Biovel

Workflow Biome-BGC SA 1.3 (1)

Thumb
Biome-BGC is a process-based biogeochemical model that can be used to simulate carbon, nitrogen and water fluxes of different terrestrial ecosystems. Two models have been implemented: the Biome-BGC v4.1.1 Max Planck Institute model, and the newly developed Biome-BGC MuSo 3.0 model. Performance, success or failure of these models are highly dependent on parameter settings and variation. Due to the high number of parameters (around 40 and 60 for 4.1.1 MPI and MuSo respectively) and the non-line...

Created: 2014-10-04

Credits: User Ferenc HORVATH User Dora Krasser User Peter Ittzes User Zoltan BARCZA Network-member BioVeL

Taverna 2
Uploader
4059?size=60x60 Gb Aleksandra Pawlik

Workflow Visualize PAV provenance as SVG (1)

Thumb
VoID descriptions are fetched as Turtle, cleaned up to be valid OWL ontology and include useful labels, processed through the OWL reasoner Pellet; this adds inferred PROV statements to the RDF, which is then fed to the PROV Toolbox, generating an SVG visualization of the provenance. Note that this workflow downloads CWM, Pellet and ProvToolbox on demand, and uses UNIX command line tools like wget and md5 which are unlikely to work in Windows. This workflow has been tested on Ubuntu 12.10 wit...

Created: 2014-05-08

Credits: User Katy Wolstencroft User Aleksandra Pawlik

Taverna 2
Uploader
4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel

Workflow Integral Projection Model for Demographic ... (1)

Thumb
This workflow constructs and analyses an IPM with only continuous stages and without ramet production based on the IPMpack (R). Information about the Input file: The data must be organized in a table (in .csv format), where each row represents one observation of an organism in the population at one census time t with the following column names: size: size of individuals in census time t sizeNext: size of individuals in census time t +1 surv: survival of individuals from census time t to t...

Created: 2013-08-13

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Taverna 2
Uploader
4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel

Workflow Matrix Population Model analysis v12 (2)

Thumb
The Matrix Population Models Workflow provides an environment to perform several analyses on a stage-matrix with no density dependence: - Eigen analysis; - Age specific survival; - Generation time (T); - Net reproductive rate (Ro); - Transient Dynamics; - Bootstrap of observed census transitions (Confidence intervals of lambda); - Survival curve; - Keyfitz delta; - Cohen's cumulative distance. This workflow requires an instance of Rserve on localhost This workflow has been created by the Bi...

Created: 2013-08-13 | Last updated: 2014-07-09

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Creation of a stage matrix model from demographic monitoring of individuals in an animal or plant population Workflow Eigen analysis Workflow Age specific analysis Workflow Transient Dynamics. Workflow Generation time (T) Workflow Net reproductive rate (Ro) Blob Demographic data Gentiana pneumonanthe 1987-1988 from Terschelling File.

Taverna 2
Uploader
4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel

Workflow Matrix Population Model construction and a... (3)

Thumb
The Matrix Population Models Workflow provides an environment to create stage-matrices with no density dependence and to perform several analyses on them: - Eigen analysis; - Age specific survival; - Generation time (T); - Net reproductive rate (Ro); - Transient Dynamics; - Bootstrap of observed census transitions (Confidence intervals of lambda); - Survival curve; - Keyfitz delta; - Cohen's cumulative distance. If multiple year transitions are selected, the results will be ordered by year. ...

Created: 2013-08-13 | Last updated: 2014-07-04

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Creation of a stage matrix model from demographic monitoring of individuals in an animal or plant population Workflow Matrix Population Model construction and analysis Workflow Eigen analysis Workflow Age specific analysis Workflow Transient Dynamics. Workflow Generation time (T) Workflow Net reproductive rate (Ro) Workflow Bootstrap of observed census transitions. Blob Demographic data Gentiana pneumonanthe 1987-1988 from Terschelling File.

Taverna 2
Uploader
3194?size=60x60 Hu Ferenc HORVATH
Project Biovel

Workflow Biome-BGC MCE 1.4.1 (4)

Thumb
Biome-BGC is a process-based biogeochemical model that can be used to simulate carbon, nitrogen and water fluxes of different terrestrial ecosystems. Two models were implemented: Biome-BGC 4.1.1 MPI (Trusilova et al. 2009) and Biome-BGC MuSo 3.0 (Hidy & Barcza 2014). Its has about 40 and 60 various parameters. The only way to estimate or set these parameters is "calibration" (data-model-harmonization or model-data-fusion), which demands a hugh amount of computational capacity. Monte Carlo Exp...

Created: 2013-06-04 | Last updated: 2014-10-04

Credits: User Ferenc HORVATH User Zoltan BARCZA User Dora Krasser User Peter Ittzes Network-member BioVeL

Taverna 2
Uploader
4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel

Workflow Net reproductive rate (Ro) (2)

Thumb
This workflow calculates the net reproductive rate (Ro) that is mean number of offspring by which a newborn individual will be replaced by the end of its life, and thus the rate by which the population increases from one generation to the next (Caswell, 2001) =============================================================== This workflow has been created by the Biodiversity Virtual e-Laboratory (BioVeL http://www.biovel.eu/) project. BioVeL is funded by the EU’s Seventh Framework Program, gr...

Created: 2012-11-02 | Last updated: 2014-07-25

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Matrix Population Model construction and analysis v20 Workflow Matrix Population Model analysis v12 Blob Stage Matrix of Gentiana pneumonanthe 1987-88

Taverna 2
Uploader
4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel

Workflow Generation time (T) (2)

Thumb
The time T required for the population to increase by a factor of Ro (net reproductive rate) e.g.: If Ro (net reproductive rate) = 5.56 and T (generation time) = 8.055 The average plant of the species Gentiana pneumonanthe in Terschelling in the year 1987 replaced itself with almost six new plants and took approximately 8.05 years to do so. ========================================================= This workflow has been created by the Biodiversity Virtual e-Laboratory (BioVeL http://www.bio...

Created: 2012-11-02 | Last updated: 2014-07-25

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Matrix Population Model construction and analysis v20 Workflow Matrix Population Model analysis v12 Blob Stage Matrix of Gentiana pneumonanthe 1987-88

Results per page:
Sort by:
Funded by: BioVeL, EPSRC, JISC, Microsoft

Affiliates: myGrid, Taverna, BioCatalogue
About | Privacy | Publications | Contact / Feedback | Mailing List
Icons: Silk icon set 1.3

Copyright © 2007 – 2018 The University of Manchester and University of Southampton