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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Matrix Population Models analysis documentation

Created: 2014-07-25 10:55:42

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

Attributions: Workflow Matrix Population Model analysis v12

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 Matrix Population Models analysis Workflow provides an environment to perform several analyses on a stage-matrix with no density dependence.Analyses:Eigen analysis.Age specific survival.Generation time (T).Net reproductive rate (Ro).Transient Dynamics.Resample a projection matrix (Confidence intervals of λ).Survival curveKeyfitz’s ΔCohen’s cumul...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Matrix Population Models construction and analyses d...

Created: 2014-07-25 10:48:13 | Last updated: 2014-07-25 10:50:17

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

Attributions: Workflow Matrix Population Model construction and analysis v20

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 Matrix Population Models construction and analyses 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 cur...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Bootstrap of observed census transitions documentation

Created: 2014-07-25 10:37:03

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

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 Bootstrap of observed census transitions (confidence intervals of λ) workflow for local execution calculates bootstrap distributions of population growth rates (λ), stage vectors, and projection matrix elements by randomly sampling with replacement from a stage-fate data frame of observed transitions. The goal of a demographic analysis is very often to est...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Parametric Bootstrap or Resample a projection matrix...

Created: 2014-07-25 09:41:10

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

Attributions: Workflow Parametric Bootstrap or Resample a projection matrix Workflow

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 Parametric Bootstrap or Resample a projection matrix Workflow provides an environment to resample a projection matrix using a multinomial distribution for transitions and a log normal distribution for fertilities (Stubben, Milligan, and Nantel. 2011). The resample is based on number of plants surveyed. The projection matrix A is first split into separate transition and ...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Age-specific survival documentation

Created: 2014-07-24 11:48:40

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

Attributions: Workflow Age specific analysis

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 the same name.The age-specific survival analysis workflow gives the basic information of the mean, variance and coefficient of variation (CV) of the time spent in each stage class and the mean and variance of the time of death.AnalysesFundamental matrix (N)Variance(var)Coefficient of variation (CV)MeanetaVareta

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Keyfitz’s delta documentation

Created: 2014-07-24 08:25:05

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

Attributions: Workflow Keyfitz delta

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with the same name.The Keyfitz’s delta Workflow provides an environment to calculate the Keyfitz delta value. Keyfitz’s delta is a measure of the distance between any two probability vectors (Keyfitz 1968). In this case is a measure of the distance between n (Observed Stage Distribution) and w (Stable Stage Distribution). The maximum value is 1 and the minimum value is 0 (w...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Cohen’s cumulative distance documentation

Created: 2014-07-24 08:20:42

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

Attributions: Workflow Cohen’s cumulative distance

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 Cohen’s cumulative distance Workflow provides an environment to calculate the Cohen’s cumulative distance. The Cohen’s cumulative distance measures the difference between observed and expected vectors along the matrix path that the population would take to reach the expected population vector. It is a function of both the observed stage distribution (n...

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1217?size=60x60 Gb Alan Williams
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Blob XPath tutorial presentation

Created: 2014-07-16 12:16:48

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a tutorial introducing how to use Taverna's XPath capabilities

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1217?size=60x60 Gb Alan Williams
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Blob Taverna Workbench introduction presentation

Created: 2014-07-16 12:15:19

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a tutorial designed to introduce the basic features of Taverna Workbench

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1217?size=60x60 Gb Alan Williams
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Blob Help presentation

Created: 2014-07-16 12:13:54

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a presentation of information on where to find help on myGrid tools

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1217?size=60x60 Gb Alan Williams
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Blob Introduction to using components presentation

Created: 2014-07-16 12:12:13

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a quick tutorial on how to use components within a workflow

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1217?size=60x60 Gb Alan Williams
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Blob Advanced Taverna Features Presentation

Created: 2014-07-16 12:09:47 | Last updated: 2014-07-16 12:10:55

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a tutorial on some of Taverna's advanced features.

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4011?size=60x60 Gb Alex Nenadic
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Blob myGrid Tools for Scientists Presentation

Created: 2014-07-16 12:03:42 | Last updated: 2014-07-18 14:43:15

Credits: User Alex Nenadic

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to myGrid tools for scientists

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Avatar Amrish Mahes
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Blob example output of the concept profile generation pip...

Created: 2014-06-26 14:52:48

Credits: User Amrish Mahes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is an example output the workflow "Concept Profile Generation Pipeline" produces when the input for the thesaurus is the thesaurus example in the workflow itself and the abstract input is from the SQL file named "example standard input for Concept Profile Generation Pipeline". This SQL file needs to be run in a SQL program with a pre-created database/schema called mydb. It produces 5 tables. These consists out of the co-occurrence, occurrence, unce...

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Avatar Amrish Mahes
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Blob example standard input for Concept Profile Generatio...

Created: 2014-06-26 14:36:00

Credits: User Amrish Mahes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a SQL file containing example standard input values for testing the concept profile generation pipeline. Run this SQL file in your SQL program with a pre-created database/schema named mydb. It will insert 1 table called abstracts with 10 abstracts and their pubmed id. The workflow will use this table as input for finding concept occurrences. 

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Avatar Rekha Maryanne Louis
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Blob Usability test file

Created: 2014-06-10 14:27:16

Credits: User Rekha Maryanne Louis

License: No license

This is a test .doc file for usability study of myExperiment from May to August 2014

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Avatar Fr Charlotte Rieux
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Blob The "drop" folder to save in your knime workspace

Created: 2014-05-30 07:26:57 | Last updated: 2014-06-20 06:23:49

Credits: User Charlotte Rieux

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Components :FASTA,Alignments,PDB,SDF,Tables,Softwares

File type: ZIP archive

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - HUMUS

Created: 2014-05-27 15:20:38

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - HUMUS

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - AIR

Created: 2014-05-27 15:18:56

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - AIR

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - HUMUS

Created: 2014-05-26 09:44:56

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - HUMUS for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - AIR

Created: 2014-05-26 09:43:22

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - AIR for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - AIR

Created: 2014-05-26 09:37:48

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - AIR for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - NINE

Created: 2014-05-26 06:42:09 | Last updated: 2014-05-26 09:40:45

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - NINE for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - HUMUS

Created: 2014-05-26 06:40:56

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - HUMUS for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO Daily Observation Data 2001-2002 - AIR

Created: 2014-05-26 06:39:44

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO Daily Observation Data 2001-2002 - AIR for GLUE analysis

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO METDATA FOR Biome-BGC, HHS, 2001-2002

Created: 2014-05-26 06:07:20

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO METDATA (daily meteorology data) file for Biome-BGC simulation runs, HHS (Hegyhátsál, HU), 2001-2002

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO METDATA + FORESEE FOR Biome-BGC, HHS, 190...

Created: 2014-05-26 06:05:43

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO METDATA (daily meteorology data) file for Biome-BGC simulation runs, HHS (Hegyhátsál, HU), 1901-2100, predictions is came from FORESEE CLM regional model output

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO METDATA FOR Biome-BGC, HHS, 1901-2000

Created: 2014-05-26 06:01:41

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO METDATA (daily meteorology data) file for Biome-BGC simulation runs

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO EPC GRASSLAND MuSo v2.2 LEAFAREA

Created: 2014-05-26 05:58:54

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO EPC file 'LEAFAREA' for Biome-BGC MuSo v2.2 simulation runs

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO EPC GRASSLAND MuSo v2.2 NITROGEN

Created: 2014-05-26 05:57:25

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO EPC file 'NITROGEN' for Biome-BGC MuSo v2.2 simulation runs

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob TEST DEMO EPC GRASSLAND MuSo v2.2 HARMONY

Created: 2014-05-26 05:55:49

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TEST DEMO EPC file 'HARMONY' for Biome-BGC MuSo v2.2 simulation runs

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob Biome-BGC 4.1.1 executable for Windows

Created: 2014-05-21 05:01:21

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Compressed directory contains all necessary subdirectories and files for running the Biome-BGC model, version 4.1.1 MPI.

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob Trusilova et al. (2009) Parameter estimation and val...

Created: 2014-05-21 04:56:56 | Last updated: 2014-05-21 05:15:32

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Trusilova, K., Trembath, J., Churkina, G. (2009) Parameter estimation and validation of the terrestrial ecosystem model Biome-BGC using eddy-covariance flux measurements. Max-Planck-Institut für Biogeochemie, Technical Reports 16, 1-60.      

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3194?size=60x60 Hu Ferenc HORVATH
Project Biovel
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Blob Thornton (2000) User's Guide for Biome-BGC, version ...

Created: 2014-05-21 04:54:33

Credits: User Ferenc HORVATH

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This User's Guide give a detailed reference to setting Biome-BGC model.

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3655?size=60x60 Nl Magnus Palmblad
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Blob LabVIEW Equivalent of Tutorial 1 Workflow

Created: 2014-05-05 11:39:35

Credits: User Magnus Palmblad

Attributions: Workflow Tutorial 1 Workflow

License: Creative Commons Attribution-Share Alike 3.0 Unported License

What is it?This is a LabVIEW equivalent of the 2014 LUMC Taverna Tutorial (a Taverna version is available at http://www.myexperiment.org/workflows/4254.html) created by Dr. David Kilgour. The workflow is an executable that only requires the free (gratis) LabVIEW Run-Time Engine. Why do we share this?The workflows demonstrates the capabilities in Taverna and LabVIEW, and may be of assistance for people who are familiar with one system who wish to get an idea about the other. This is the f...

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9?size=60x60 Gb Stian Soiland-Reyes
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Blob TEST file

Created: 2014-04-29 13:21:44

Credits: User Stian Soiland-Reyes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Why is this so tiny?

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1404?size=60x60 Gb Christian
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Blob Starter Pack CommandLine Testing bat file

Created: 2014-04-10 16:27:27 | Last updated: 2014-04-16 13:05:13

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a bat file used to Test the Taverna Starter packhttp://www.myexperiment.org/packs/612.htmlUsing Taverna Command Line 

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1404?size=60x60 Gb Christian
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Blob AstroTaverna Starter Pack CommandLine Testing bat file

Created: 2014-04-10 16:16:34 | Last updated: 2014-04-16 13:06:55

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the bat file used to Test AstroTaverna Starter packhttp://www.myexperiment.org/packs/420.htmlUsing Taverna CommandLine

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1404?size=60x60 Gb Christian
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Blob Table format coversion: ASCII to VOTable Example Input

Created: 2014-04-10 15:06:40

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example Input File for workflow Table format coversion: ASCII to VOTablehttp://www.myexperiment.org/workflows/3513.htmlUsed for CommandLine testing

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1404?size=60x60 Gb Christian
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Blob Coordinate units conversion Example Input

Created: 2014-04-10 14:47:59

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example input VOTable for workflow Coordinate units conversionhttp://www.myexperiment.org/workflows/3515.htmlUsed for CommandLine testing

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1404?size=60x60 Gb Christian
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Blob Joins two VOTables with the same numer of rows into ...

Created: 2014-04-10 14:16:19

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example Values for the Parameter VOTable1 for workflow Joins two VOTables with the same numer of rows into a single onehttp://www.myexperiment.org/workflows/3518.htmlUsed for CommandLine Testing

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1404?size=60x60 Gb Christian
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Blob Joins two VOTables with the same numer of rows into ...

Created: 2014-04-10 14:16:13

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example Values for the Parameter VOTable2 for workflow Joins two VOTables with the same numer of rows into a single onehttp://www.myexperiment.org/workflows/3518.htmlUsed for CommandLine Testing

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1404?size=60x60 Gb Christian
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Blob Extract a column from a VOTable into a List example ...

Created: 2014-04-10 14:01:29

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the example input values for the parameter VOTable for the workflow Extract a column from a VOTable into a Listhttp://www.myexperiment.org/workflows/3437.htmlUsed for CommandLine testing. 

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Blob Cocatenates several VOTables into one votable1 examp...

Created: 2014-04-10 13:34:08

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example value for parameter votable1 for workflow "Cocatenates several VOTables" into one http://www.myexperiment.org/workflows/3130.html

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1404?size=60x60 Gb Christian
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Blob Cocatenates several VOTables example value for votable2

Created: 2014-04-10 13:33:57

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example value for parameter votable2 for workflow "Cocatenates several VOTables" into one http://www.myexperiment.org/workflows/3130.html

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Blob Cocatenates several VOTables example value for votable3

Created: 2014-04-10 13:33:33

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example value for parameter votable3 for workflow "Cocatenates several VOTables" into one http://www.myexperiment.org/workflows/3130.html

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1404?size=60x60 Gb Christian
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Blob Cocatenates several VOTables example value for votable4

Created: 2014-04-10 13:33:17

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example value for parameter votable4 for workflow "Cocatenates several VOTables" into one http://www.myexperiment.org/workflows/3130.html

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Blob Select columns from VOTable Example Input Value

Created: 2014-04-10 12:48:14 | Last updated: 2014-04-10 13:10:26

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example input Data for Workflow Select columns from VOTablehttp://www.myexperiment.org/workflows/3520.htmlCan also be used to test Select rows from VOTablehttp://www.myexperiment.org/workflows/3519.html Used for CommandLine Testing

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1404?size=60x60 Gb Christian
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Blob Transformation of reference coordinate system Exampl...

Created: 2014-04-10 12:34:41

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the example Input for the workflow Transformation of reference coordinate systemhttp://www.myexperiment.org/workflows/3551.htThis is intended for CommandLine Testing 

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1404?size=60x60 Gb Christian
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Blob Add a common row to a VOTable MainVOTable example V...

Created: 2014-04-10 12:21:17

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the example value for the MainVOTable parameter in the workflow Add a common row to a VOTablehttp://www.myexperiment.org/workflows/3552.htmlUsed for CommanLineTesting

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1404?size=60x60 Gb Christian
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Blob Add a common row to a VOTable CommonRow Example Values

Created: 2014-04-10 12:15:29

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This the example Value for the  parameter CommonRow in the workflow Add a common row to a VOTablehttp://www.myexperiment.org/workflows/3552.htmlUsed for CommanLine Testing

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Blob Perform Multi-ConeSearch queries to a VO Service Ex...

Created: 2014-04-10 11:59:12

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the example input for the workflow Perform Multi-ConeSearch queries to a VO Service http://www.myexperiment.org/workflows/3555.htmlIt is intended for CommandLine  Testing.

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Blob Perform Multi-SSA queries to an Spectral VO Service ...

Created: 2014-04-10 10:25:22 | Last updated: 2014-04-10 11:18:14

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This File contains the example input value for Perform Multi-SSA queries to an Spectral VO Service http://www.myexperiment.org/workflows/3562.htmlAlso used for Perform Multi-SIA queries to an Image VO Service http://www.myexperiment.org/workflows/3558Intended for Taverna CommandLine testing

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Blob Example input for EBI_InterproScan_NewServices

Created: 2014-04-09 16:15:28

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is an example input file for http://www.myexperiment.org/workflows/4202.html.It contains the example value for the parameter sequence.This was correct at the time of uploading this file.

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1780?size=60x60 Gb Donal Fellows
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Blob QA Object Comparison Component

Created: 2014-03-31 14:58:10 | Last updated: 2014-04-01 10:56:47

License: Creative Commons Attribution-Noncommercial-Share Alike 3.0 Unported License

A SCAPE QA component profile.

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Matrix Terschelling pooled data or weighted main matrix

Created: 2014-03-28 14:38:43

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflow: Life Table Response Experiments (LTRE)_Year Effect One Location V1 (http://www.myexperiment.org/packs/590.html)If you use the file please quote as:Oostermeijer, J.G.B. M.L. Brugman, E.R. de Boer; H.C.M. Den Nijs. 19...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Matrix Terschelling 92-93

Created: 2014-03-28 14:31:44

Credits: User Maria Paula Balcazar-Vargas

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflow: Life Table Response Experiments (LTRE)_Year Effect One Location V1 (http://www.myexperiment.org/packs/590.html)If you use the file please quote as:Oostermeijer, J.G.B. M.L. Brugman, E.R. de Boer; H.C.M. Den Nijs. 19...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Matrix Terschelling 91-92

Created: 2014-03-28 14:30:15

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflow: Life Table Response Experiments (LTRE)_Year Effect One Location V1 (http://www.myexperiment.org/packs/590.html)If you use the file please quote as:Oostermeijer, J.G.B. M.L. Brugman, E.R. de Boer; H.C.M. Den Nijs. 19...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Matrix Terschelling 90-91

Created: 2014-03-28 14:24:33

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflow: Life Table Response Experiments (LTRE)_Year Effect One Location V1 (http://www.myexperiment.org/packs/590.html)If you use the file please quote as:Oostermeijer, J.G.B. M.L. Brugman, E.R. de Boer; H.C.M. Den Nijs. 19...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Matrix Terschelling 87-88

Created: 2014-03-28 14:22:32

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflow: Life Table Response Experiments (LTRE)_Year Effect One Location V1 (http://www.myexperiment.org/packs/590.html)If you use the file please quote as:Oostermeijer, J.G.B. M.L. Brugman, E.R. de Boer; H.C.M. Den Nijs. 19...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Pooled_matrix_file_Gentiana_LTRE

Created: 2014-03-27 10:37:46 | Last updated: 2014-08-29 13:23:06

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Pooled_matrix_file or weighted main Matrix - what popbio (R package) calls pooled matrix (to see more details: Horvitz, Schemske and Caswell 1997; Horvitz, and Schemske 1995). This is a matrix in a .txt format, all decimal numbers in each matrix must be indicated by dots e.g.: 0.578.To understand how to calculate a pooled matrix or a weighted main Matrix, please see: Choice of a reference matrix (pag: 253, in Horvitz, Schemske and Caswell 1997). This list of matrices will be used to perf...

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4039?size=60x60 Francisco Quevedo
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Blob TDWG Level 4

Created: 2014-03-21 16:45:54 | Last updated: 2014-03-21 16:46:10

Credits: User Francisco Quevedo

License: Creative Commons Attribution-Share Alike 3.0 Unported License

TDWG Level 4

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Blob LOGS

Created: 2014-03-02 22:34:21 | Last updated: 2014-04-18 00:54:19

Credits: User cecilia Amaya

License: Creative Commons Attribution-Share Alike 3.0 Unported License

ESTRUCTURAS CREADAS PARA LOGS:APACHE-ACCESOAPACHE-ERROSENDMAILPOSFIXKERNELSNORT FULLSNORT FAST

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292?size=60x60 Tim Booth
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Blob Setup instructions for BioLinux updated

Created: 2014-02-27 18:14:25

Credits: User Tim Booth User Norman Morrison User Francisco Quevedo

Attributions: Blob Setup instructions for BioLinux VM

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Updated version of the instructions posted by Norman

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688?size=60x60 Us M. Kirsh
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Blob Science, the Virtual and the Actual: a real stand-off

Created: 2014-02-23 01:00:13

Credits: User M. Kirsh

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Abstract: The World Wide Web is a source of social encounter occurring over undefined distances. If physical parameters of social encounter are considered uncontrollable for studies in a natural setting, the internet world, when dissected philosophically with respect to physical witnessibility of engaged identities, provides a model in which distance is absent. Upon comparison of meaning in science method and theory as it is necessarily rooted to common perceptional experience, it is proposed...

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688?size=60x60 Us M. Kirsh
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Blob Determining the Determined State : a sizing of size ...

Created: 2014-02-23 00:50:50

Credits: User M. Kirsh

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Abstract: A philosophical exploration is presented that considers entities such as atoms, electrons, protons, reasoned (in existing physics theories) by induction, to be other than universal building blocks, but artifacts of a sociological struggle that in elemental description is identical with that of all processes of matter and energy. In a universal context both men and materials, when stressed, struggle to accomplish/maintain the free state. The space occupied by cognition, inferred to b...

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292?size=60x60 Tim Booth
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Blob Rserve on Bio-Linux

Created: 2014-02-13 14:55:21

Credits: User Tim Booth

License: Creative Commons Attribution-Share Alike 3.0 Unported License

The recommended way to run Rserve on Bio-Linux is to install the "r-cran-rserve" package - ie:$ sudo apt-get install r-cran-rserve(Note - this wasn't working on the morning of the 13th but has now been fixed in version 1.7-3-0biolinux2)If you install the library by using install.packages("Rserve") it will work but it will not get updated and will mask the system version of Rserve, which could cause you hard-to-diagnose problems down the line.  My recommendation is...

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3366?size=60x60 Gb Norman Morrison
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Blob An introduction to designing and executing workflows...

Created: 2014-02-13 08:46:17

Credits: User Norman Morrison User Katy Wolstencroft User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This tutorial uses Bioinformatics exercises as an introduction to designing and executing workflows with Taverna.

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3366?size=60x60 Gb Norman Morrison
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Blob Working with the BioVeL Portal

Created: 2014-02-11 16:12:36

Credits: User Norman Morrison User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

In this exercise we will upload and run a simple workflow that we created in the previous exercises on the BioVeL portal.

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3366?size=60x60 Gb Norman Morrison
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Blob Setup instructions for BioLinux VM

Created: 2014-02-11 16:01:51 | Last updated: 2014-02-13 11:06:17

Credits: User Norman Morrison User quevedo79

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Version2

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3366?size=60x60 Gb Norman Morrison
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Blob Embedding an R Script in a Workflow Exercise

Created: 2014-02-11 15:42:26

Credits: User Norman Morrison

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This exercise is designed as a problem based learning task to understand how to embed R Scripts in workflows in Taverna.

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Blob Using R Shell in Taverna workbench

Created: 2014-02-11 14:55:12 | Last updated: 2014-02-13 17:54:04

Credits: User Norman Morrison User Peter Li

License: Creative Commons Attribution-Share Alike 3.0 Unported License

In this tutorial we wil perform some simple statistical analyses using the RShell processor

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3366?size=60x60 Gb Norman Morrison
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Blob Exploring the Taverna workflow engine

Created: 2014-02-10 14:45:48 | Last updated: 2014-02-10 14:46:54

Credits: User Norman Morrison User Katy Wolstencroft User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

In this tutorial we will explore the Taverna workflow engine, including: 1) iteration; 2) looping; 3) parallel invocation.

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Blob An introduction to designing and executing workflows...

Created: 2014-02-06 16:42:14 | Last updated: 2014-02-06 16:44:14

Credits: User Norman Morrison User Katy Wolstencroft User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Part 2 - An introduction to designing and executing workflows with Taverna. Importing and exporting data.

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3366?size=60x60 Gb Norman Morrison
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Blob 03E_species_list_2.xls

Created: 2014-02-06 16:09:11

Credits: User Norman Morrison

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This data file is supplementary material for "An Introduction to Designing and Executing Workflows with Taverna - Part 2".

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3366?size=60x60 Gb Norman Morrison
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Blob 03D_species_2.txt

Created: 2014-02-06 16:08:26

Credits: User Norman Morrison

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This data file is supplementary material for "An Introduction to Designing and Executing Workflows with Taverna - Part 2".

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3366?size=60x60 Gb Norman Morrison
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Blob 03C_species_list_1.xls

Created: 2014-02-06 16:02:27

Credits: User Norman Morrison

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This data file is supplementary material for "An Introduction to Designing and Executing Workflows with Taverna - Part 2".

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3366?size=60x60 Gb Norman Morrison
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Blob 03B_species_1.txt

Created: 2014-02-06 15:19:41 | Last updated: 2014-02-06 16:03:18

Credits: User Norman Morrison

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This data file is supplementary material for "An Introduction to Designing and Executing Workflows with Taverna - Part 2".

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3366?size=60x60 Gb Norman Morrison
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Blob An introduction to designing and executing workflows...

Created: 2014-02-06 14:52:19 | Last updated: 2014-02-06 16:45:12

Credits: User Norman Morrison User Katy Wolstencroft User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Part 1 - An introduction to designing and executing workflows with Taverna. Building a simple workflow.

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3377?size=60x60 Gb Jon Giddy
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Blob Partition Years Interaction Page

Created: 2014-02-04 10:52:30 | Last updated: 2014-02-06 12:33:46

Credits: User Jon Giddy

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Interaction page to allow a range of years to be grouped

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3377?size=60x60 Gb Jon Giddy
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Blob Partition Years Javascript

Created: 2014-02-04 10:50:20

Credits: User Jon Giddy

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Javascript part of an interaction page to partition a range of years into groups. 

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Matrix Terschelling 89-90

Created: 2014-01-29 11:46:02 | Last updated: 2014-03-28 14:18:57

Credits: User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflows:Life Table Response Experiments (LTRE) Fixed design Place effects V1 (http://www.myexperiment.org/packs/574.html) and Life Table Response Experiments (LTRE)_Year Effect One Location V1 (http://www.myexperi...

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Blob Matrix Terschelling 88-89

Created: 2014-01-29 11:44:47 | Last updated: 2014-03-28 14:18:17

Credits: User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflows:Life Table Response Experiments (LTRE) Fixed design Place effects V1 (http://www.myexperiment.org/packs/574.html) and Life Table Response Experiments (LTRE)_Year Effect One Location V1 (http://www.myexperi...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Matrix Lochem 89-90

Created: 2014-01-29 11:42:38

Credits: User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflow Life Table Response Experiments (LTRE) Fixed design Place effects V1 (http://www.myexperiment.org/packs/574.html). If you use the file please quote as:Oostermeijer, J.G.B. M.L. Brugman, E.R. de Boer; H.C.M. Den ...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
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Blob Matrix Dwingeloo 1 88-89

Created: 2014-01-29 11:22:20

Credits: User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflow Life Table Response Experiments (LTRE) Fixed design Place effects 1 (http://www.myexperiment.org/packs/574.html) If you use the file please quote as:Oostermeijer, J.G.B. M.L. Brugman, E.R. de Boer; H.C.M. Den Nijs. 1...

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Using R service in Taverna - Introduction

Created: 2014-01-22 13:29:52

Credits: User Norman Morrison User Peter Li

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to using R service in Taverna workflows.

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Introduction to building workflows with Taverna

Created: 2014-01-22 13:28:47

Credits: User Aleksandra Pawlik User Katy Wolstencroft User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to building workflows with Taverna for the Cranfield University course.

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Blob Cranfield - Introduction to webservices and workflows

Created: 2014-01-22 13:27:41

Credits: User Aleksandra Pawlik User Katy Wolstencroft User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to workflows, web services and Taverna for the Cranfield University.

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4144?size=60x60 De Alexey Mints
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Blob MOC finder

Created: 2014-01-22 13:20:46 | Last updated: 2014-10-06 11:00:19

Credits: User Alexey Mints

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Class to search for positions in HEALPix Multi-Order Coverage maps.See http://www.ivoa.net/documents/MOC/20130910/WD-MOC-1.0-20130910.htmlMOCs can be prepared with Aladin or stilts or downloaded fromhttp://alasky.u-strasbg.fr/footprints/tables/vizier/ 

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Blob simple FASTA workflow

Created: 2014-01-22 11:45:23 | Last updated: 2014-01-22 11:45:41

Credits: User Mark Rogers

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simple FASTA workflow

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Test Data for Rservice Tutorial-Biodiversity

Created: 2014-01-19 14:38:17

Credits: User Aleksandra Pawlik User Norman Morrison User Peter Li

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Test data for R service tutorial usage in Taverna.

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Blob BiodiversityCatalogue presentation

Created: 2013-12-06 13:50:51 | Last updated: 2013-12-06 13:52:46

Credits: User Alex Nenadic

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A set of slides on how to use and register services in BiodiversityCatalogue (presented by Aleksandra Nenadic at the Taverna workshop, 5-6 december 2013, Manchester).

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1217?size=60x60 Gb Alan Williams
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Blob Help information powerpoint

Created: 2013-12-06 10:01:54

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A set of slides about where to seek help

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4144?size=60x60 De Alexey Mints
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Blob f90-build

Created: 2013-12-05 12:07:43

Credits: User Alexey Mints

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Simple script to build f90 program with all required modules (all of "use" statesments).

File type: application/x-shellscript

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4144?size=60x60 De Alexey Mints
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Blob fits/votable to SQL converter

Created: 2013-12-05 11:53:20 | Last updated: 2013-12-19 10:24:00

Credits: User Alexey Mints

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Simple python script to convert Fits file or VO-table to SQL database.Optimized for PostgreSQL, but easily modified for anything else.So far only SQL-script preparation is done. You can execute the output Yourself.

File type: text/x-python

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Introduction to Taverna Workbench

Created: 2013-12-05 10:37:24 | Last updated: 2013-12-05 10:55:47

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to Taverna Workbench - building workflows, using different data input formats, saving results, using Shim services.

File type: PowerPoint presentation

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3366?size=60x60 Gb Norman Morrison
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Blob Biodiversity Test Data for Rservice Tutorial

Created: 2013-12-04 22:27:38 | Last updated: 2013-12-04 22:29:48

Credits: User Norman Morrison

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A small hypothetical set of species incidence data from 4 species measured from 6 sites, for use with the "Performing statistical analyses using the Rshell processor " tutorial.

File type: text/csv

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob RShell Tutorial for Taverna Workbench

Created: 2013-12-04 18:18:23

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

RShell Tutorial for Taverna Workbench - using Rshell service in workflows.

File type: PowerPoint presentation

Comments: 0 | Viewed: 49 times | Downloaded: 60 times

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Taverna Components Tutorial

Created: 2013-12-04 18:17:05

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Taverna Components Tutorial: creating and using components

File type: PowerPoint 2007 presentation

Comments: 0 | Viewed: 58 times | Downloaded: 60 times

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Taverna Workbench Engine Tutorial

Created: 2013-12-04 18:16:09

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Taverna Workbench Engine Tutorial: cross and dot product, iteration, looping and control links.

File type: PowerPoint presentation

Comments: 0 | Viewed: 56 times | Downloaded: 55 times

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