1. Home
  2. Groups
  3. BioVeL internal
  4. Content

Content from the BioVeL internal group

Search filter terms
Filter by category
Filter by type
Filter by tag
Filter by user
Filter by licence
Results per page:
Sort by:
Showing 176 results. Use the filters on the left and the search box below to refine the results.
Taverna 2
Uploader
Avatar De Robert Kulawik
Project Biovel

Workflow BioVeL ESW DIFF - ENM Statistical Workflow... (16)

Thumb
The ENM Statistical Difference Workflow (ESW DIFF) allows the computation of the extent and intensity of change in species potential distribution through computation of the differences between two raster layers using the R statistical environment (R Core Team 2013). The difference file is computed from two input files (in this case present projection and 2050 projection) coming from the Ecological Niche Modelling (ENM) Workflow (http://www.myexperiment.org/workflows/3355). The difference bet...

Created: 2013-07-08 | Last updated: 2016-06-22

Credits: User Robert Kulawik

Taverna 2
Uploader
4080?size=60x60 Renato De Giovanni
Project Biovel

Workflow Ecological niche modelling workflow (28)

Thumb
This workflow takes as input a file containing species occurrence points to create a model with the openModeller Web Service. Algorithm, environmental layers and mask are selected during the workflow. The model is tested (internal test and optional cross validation external test) and then projected one or more times. All points from the input file are used to create a single model, even if there are differences in the scientific names. Cross validation calculates the mean AUC. Model projectio...

Created: 2013-01-07 | Last updated: 2015-06-11

Credits: User Renato De Giovanni User Alan Williams User Robert Kulawik User Francisco Quevedo User Vhernand Network-member BioVeL

Attributions:

Taverna 2
Uploader
Avatar Cherian Mathew
Project Biovel

Workflow Data Refinement Workflow v17 (17)

Thumb
The aim of the (Taxonomic) Data Refinement Workflow is to provide a streamlined workflow environment for preparing observational and specimen data sets for use in scientific analysis on the Taverna platform. The workflow has been designed in a way that, • accepts input data in a recognized format, but originating from various sources (e.g. services, local user data sets), • includes a number of graphical user interfaces to view and interact with the data, • the output of each part of the work...

Created: 2012-04-11 | Last updated: 2014-12-17

Credits: User Cherian Mathew

Taverna 2
Uploader
Avatar De Robert Kulawik
Project Biovel

Workflow BioVeL ESW STACK - ENM Statistical Workflo... (5)

Thumb
The ENM Statistical Stack Workflow (ESW STACK) allows the computation of the extent, intensity and a cummulated potential species distribution through computation of an average sum layer from the input raster layers using the R statistical environment (R Core Team 2013). The sum layer is computed from all input files. e.g from different distribution of species as a mean value from each corresponding raster cell values, coming from the Ecological Niche Modelling (ENM) Workflow (http://www.myex...

Created: 2013-10-13 | Last updated: 2016-06-22

Credits: User Robert Kulawik

Taverna 2
Uploader
4077?size=60x60 De Antonio Fernandez-Guerra

Workflow Microbial Metagenomic Trait Statistical An... (9)

Thumb
This workflow retrieves the following microbial metagenomic traits from the Microbial Metagenomic Trait Database: -GC content -Variance of GC content -Dinucleotides -Number of rRNA -Codon usage -Amino acid composition -Acidic to basic amino acids ratio -% of Transcriptional factors -% of classified reads -Functional content -Functional diversity -Taxonomic content -Taxonomic diversity After the retrieval performs the ecological analyses described in Barberan et al. 2012 (http://dx.doi.or...

Created: 2012-12-19 | Last updated: 2014-11-12

Credits: User Antonio Fernandez-Guerra User Renzo User Peliny Network-member BioVeL

Taverna 2
Uploader
4080?size=60x60 Renato De Giovanni
Project Biovel

Workflow Bioclim workflow (6)

Thumb
This workflow takes as input a file containing species occurrence points to create a model with the openModeller Web Service using the Bioclim algorithm. Environmental layers and mask are selected during the workflow. Points are filtered so that only environmentally unique points are used to create the model. You can use this workflow to either filter a set of species occurrence points excluding redundant points with the same environmental conditions (you can get the result in the output "se...

Created: 2013-09-02 | Last updated: 2015-04-04

Credits: User Renato De Giovanni Network-member BioVeL

Creator
4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
Show View Download Download

Pack Matrix Population Model construction and analysis pack


Created: 2013-08-13 14:31:09 | Last updated: 2015-06-12 13:48:43

This pack contains a workflow, a file and documentation (tutorial to run the workflow).The Matrix Population Models Workflow provides an environment for create a stage-matrix with no density dependence and perform several analyses on it.Analyses:Eigen analysis.Age specific survival.Generation time (T).Net reproductive rate (Ro).Transient Dynamics.Bootstrap of observed census transitions (Confidence intervals of λ).Survival curveKeyfitz’s ΔCohen’s cumulative distanceTh...

4 items in this pack

Comments: 0 | Viewed: 243 times | Downloaded: 68 times

Tags:
Uploader
4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
Show View Download Download

Blob Integral Projection Model documentation

Created: 2013-08-13 13:22:56 | Last updated: 2014-07-04 12:20:25

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

Attributions: Workflow Integral Projection Model for Demographic Modelling v34 Blob Demographic data Cryptantha flava

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with same name.The Integral Projection Model Workflow provides an environment for create an integral projection model and to calculate its population growth, structure, sensitivities and elasticities analyses, age-specific metrics, etc.Create an IPM with no density dependence and perform several analyses on it.Analyses:Lambda (λ).Sensitivity analysis.Elasticity analysis.Parameters ...

File type: Adobe PDF

Comments: 0 | Viewed: 159 times | Downloaded: 118 times

Tags:
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
3375?size=60x60 It Saverio Vicario
Project Biovel

Workflow Partitioning environmental sequencing data... (5)

Thumb
Partitioning environmental sequencing data using categorical and phylogenetic information using PhyloH . The WF need a tree in newick format, a samplefile that show the where the leaf of the tree are found in the different sample and how many time, and a grouping file where the different sample are grouped using a categorical variable. The WF gives back a tabular and graphical representation of an entropy based partitioning of the information present in the sequence across the groupings, and ...

Created: 2013-05-07 | Last updated: 2015-06-12

Credits: User Saverio Vicario

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