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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Term run file

Created: 2014-09-30 09:29:57 | Last updated: 2014-09-30 09:30:11

Credits: User Antonio Velez-Espino User Andres Araujo

Attributions: Workflow Exploration of fishing scenarios

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This file contains the time series of terminal run for each of the ER indicator stocks.

File type: text/csv

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob ER_Indicators file

Created: 2014-09-30 09:27:47

Credits: User Antonio Velez-Espino User Andres Araujo

Attributions: Workflow Exploration of fishing scenarios

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This file shows the exploitation rate (ER) indicator stocks used to represent exploitation-rate time series with terminal-run time series of Chinook salmon aggregates.

File type: text/csv

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Killer whale demography documentation

Created: 2014-09-26 12:19:25

Credits: User Maria Paula Balcazar-Vargas User Antonio Velez-Espino User Andres Araujo User Jon Giddy User Francisco Quevedo

Attributions: Workflow Killer whale demography

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation contains the tutorial to run the Killer whale demography workflows. This tutorial explains the type of input data needed to run the workflow. The corresponding analysis use data from two distinct O. orca populations in Canada, Southern Resident Killer Whales (SRKW) and the Northern Resident Killer Whales (NRKW). The Killer whale demography workflow performs the following analyses: •      Vital rates estimation and probability dis...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Resident killer whale-chinook salmon interactions an...

Created: 2014-09-26 12:09:28 | Last updated: 2014-09-26 12:11:12

Credits: User Maria Paula Balcazar-Vargas User Antonio Velez-Espino User Andres Araujo User Jon Giddy User Francisco Quevedo

Attributions: Workflow Exploration of fishing scenarios Workflow Resident killer whale-chinook salmon interactions

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation contains the tutorial to run two related workflows. 1.    Resident killer whale-chinook salmon interactions workflow The Resident killer whale-chinook salmon interactions workflow provides an environment to create calculate a two-sex stage-structured matrix with no density dependence and with vital rates as random variables or as functions of Chinook abundance from specific stock aggregates and to (i) quantify the differences in demographic rates be...

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4144?size=60x60 De Alexey Mints
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Blob FITS header printer

Created: 2014-09-23 15:01:02 | Last updated: 2014-11-27 08:26:31

Credits: User Alexey Mints

License: Creative Commons Attribution-Share Alike 3.0 Unported License

usage: fitsheader.py [-h] [-f FILENAME] [-k KEYS] [-t TABLE] [--history]                     [--comments] [--data] [-o]optional arguments:  -h, --help            show this help message and exit  -f FILENAME, --filename FILENAME                        File to use  -k KEYS, --keys KEYS  Header keys to use (mask can be given)  -...

File type: text/x-python

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Sensitivity of resident killer whale population dyna...

Created: 2014-09-11 09:11:46 | Last updated: 2014-09-11 09:12:49

Credits: User Antonio Velez-Espino User Andres Araujo

License: Creative Commons Attribution-No Derivative Works 3.0 Unported License

Sensitivity of resident killer whale population dynamics to Chinook salmon abundance.L. Antonio Vélez-Espino1,£, John K.B. Ford2, Charles K. Parken1, Graeme Ellis2, Eric Ward3, Larrie LaVoy4, Ken Balcomb5, M. Bradley Hanson3, Dawn P. Noren3, Tom Cooney4, Rishi Sharma6,7.(1) Salmon and Freshwater Ecosystems Division, Fisheries and Oceans Canada; (2) Marine Mammal Division, Fisheries and Oceans Canada; (3) Conservation Biology Division, Northwest Fisheries Science Center (NOAA); (4...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Comparative Demography and Viability of Northeastern...

Created: 2014-09-11 09:03:19

Credits: User Antonio Velez-Espino User Andres Araujo

License: Creative Commons Attribution-No Derivative Works 3.0 Unported License

Comparative Demography and Viability of Northeastern Pacific Resident Killer Whale Populations at Risk.L.A. Vélez-Espino, J.K.B. Ford, H.A. Araujo, G. Ellis, C.K. Parken, and K.C. BalcombFisheries and Oceans CanadaScience Branch, Pacific RegionPacific Biological StationNanaimo, BCV9T 6N72014Canadian Technical Report ofFisheries and Aquatic Sciences 3084 Two distinct populations of resident killer whales (Orcinus orca) in the northeastern Pacific Ocean have been identified in Canad...

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Blob OWL Ontology Survey Data

Created: 2014-09-06 15:16:41 | Last updated: 2014-09-12 17:57:10

Credits: User Azlinayati

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This file contains the survey data for OWL Ontology on the Web survey.

File type: text/csv

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1404?size=60x60 Gb Christian
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Blob Bonn 2014 Help links

Created: 2014-09-03 08:19:52 | Last updated: 2014-09-03 08:20:20

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Many useful links accurate Sept 2014

File type: Adobe PDF

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1404?size=60x60 Gb Christian
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Blob Bonn 2014 Example Fasta Ids Mac Format

Created: 2014-09-02 08:02:51

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the Fasta files in MAC format. 

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1404?size=60x60 Gb Christian
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Blob Bonn 2014 Fasta Example Values UNIX format

Created: 2014-09-02 07:57:46

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the Fasta Example IDs in UNIX Format

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9?size=60x60 Gb Stian Soiland-Reyes
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Blob Bonn 2014 Agenda

Created: 2014-09-01 09:08:17 | Last updated: 2014-09-03 08:10:40

Credits: User Stian Soiland-Reyes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Agenda Bonn “in silico experimentation” course 2014-09-01 / 2014-09-03Please sign up and join the myExperiment group: Bonn Workshop Sep 2014For each tutorial and presentation, there is an accompanying slideset in this group. For your convenience, this Agenda PDF has links to each of these as [T-xxx.pdf].  

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Elasticity and Sensitivity of the Vital rates docume...

Created: 2014-08-29 14:49:44 | Last updated: 2014-08-29 14:50:15

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

Attributions: Workflow Elasticity and Sensitivity of the Vital rates

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.This workflow calculates the Elasticity and Sensitivity of population growth rate with respect to various vital rates. The goal in both cases is to determine which vital rate(s) has/have the most influence on population growth rate (λ).Elasticity and Sensitivity: Sensitivity and elasticity analyses are prospective analyses.The sensitivity matrix: The sensitivity desc...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Orcinus orca (Killer whale) demography and populatio...

Created: 2014-08-29 12:21:35 | Last updated: 2014-08-29 16:23:18

Credits: User Maria Paula Balcazar-Vargas User Antonio Velez-Espino User Jon Giddy

Attributions:

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 Normal 0 false false false EN-US X-NONE X-NONE ...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob ChinookAbundance_FI_R file

Created: 2014-08-29 12:08:37

Credits: User Antonio Velez-Espino

Attributions:

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Table showing the time series of Fishery Impacts of all stocks by time lag used in the analysis.

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob ChinookAbundance_Data_R file

Created: 2014-08-29 12:04:46 | Last updated: 2014-08-29 16:24:00

Credits: User Antonio Velez-Espino

Attributions:

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Table showing the time series of abundance (TR or OA) of all stocks and stock aggregates by time lag used in the analysis.

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Chinook_Ab_Defs_FI_R file

Created: 2014-08-29 11:55:36

Credits: User Antonio Velez-Espino

Attributions:

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Table used to define fishery impacts (FI) on Chinook abundance by stock aggregate, time lag (5YA: 5-year running average), and hypothesis (SR: Southern Resident Killer Whale; NR: Northern Resident Killer Whale) and abundance ID. FI represent ocean catch of specific Chinook stocks or stock aggregates. See below information about hypothesis.

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Chinook_Ab_Definitions_R file

Created: 2014-08-29 11:53:56

Credits: User Antonio Velez-Espino

Attributions:

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Table that contains Chinook abundance definitions by stock aggregate, abundance type (TR: Terminal Run; OA: Ocean Abundance), time lag (5YA: 5-year running average), and hypothesis (SR: Southern Resident Killer Whale; NR: Northern Resident Killer Whale) and abundance ID. See below information about hypothesis.

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Vital Rates_combined

Created: 2014-08-29 11:51:09

Credits: User Antonio Velez-Espino

Attributions:

License: Creative Commons Attribution-Share Alike 3.0 Unported License

The stage-structured life cycle of resident killer whales with seven life stages:(1) calves; (Calf)(2) juveniles; (Juv)(3) young reproductive females; (F1)(4) old reproductive females; (F2)(5) post-reproductive females; (F3)(6) young mature males; and (M1)(7) old mature males (M2).Fi represent fertility; Gi represent stage transition probabilities, with female and male juvenile-to-adult transitions indicated as G2f and G2m, respectively; and, Pi represent the probability of surviving and rema...

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Northern Resident Killer Whale (NRKW) demographic data

Created: 2014-08-29 11:46:14 | Last updated: 2014-08-29 16:25:25

Credits: User Antonio Velez-Espino

Attributions:

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Northern Resident Killer Whale (NRKW) demographic data.The input data (a .csv-file) has to have the format of a table containing the Orcinus orca demographic data with the columns named: Year, Age, Count, Offspring and Cat1. Each year, the number of individuals per age and the number of offspring per age reproductive female category are counted (females ≥ 10 years old). IF A Female category does not have offspring equals to 0. For the called column, Cat1; Ages 1 to 9 belongs to Juv (Juveni...

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Southern Resident Killer Whale (SRKW) demographic data

Created: 2014-08-29 11:43:47

Credits: User Antonio Velez-Espino

Attributions:

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Southern Resident Killer Whale (SRKW) demographic dataThe input data (a .csv-file) has to have the format of a table containing the Orcinus orca demographic data with the columns named: Year, Age, Count, Offspring and Cat1. Each year, the number of individuals per age and the number of offspring per age reproductive female category are counted (females ≥ 10 years old). IF A Female category does not have offspring equals to 0. For the called column, Cat1; Ages 1 to 9 belongs to Juv (Juvenil...

File type: Excel workbook

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1404?size=60x60 Gb Christian
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Blob Example Fasta Ids CVS

Created: 2014-08-29 10:44:20

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a small csv file which has Fasta IDs in Column B rows 2 to 6

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Variance matrix documentation

Created: 2014-08-28 13:53:09

Credits: User Maria Paula Balcazar-Vargas User Mikolaj Krzyzanowski User Jon Giddy User Francisco Quevedo User Gerard Oostermeijer

Attributions: Workflow Variance matrix

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.This workflow estimates the variance matrix from a list of matrices.

File type: Adobe PDF

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Calculate and Plot abundance over the years document...

Created: 2014-08-28 13:17:28

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

Attributions: Workflow Calculate and Plot abundance over the years

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.This workflow calculate and plot the survival based on two or more years census data that contains transitions probabilities from each stage to the next, of tagged or mapped individuals of an animal or plant population.

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Decomposed matrix of Gentiana pneumonanthe

Created: 2014-08-28 11:28:44

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This file (decomposed matrix) is used in the documentation as example to run the Elsticity and Sensitivity of the Vital rates Workflow.

File type: Excel workbook

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1404?size=60x60 Gb Christian
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Blob Bonn 2014 Example Fasta Ids Windows Format

Created: 2014-08-27 13:43:56 | Last updated: 2014-09-02 07:59:09

Credits: User Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a small list of Fasta IDs for testing workflows and tutorials.  

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Demographic data Gentiana pneumonanthe 1987-1993

Created: 2014-08-22 12:01:38

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 demographic data 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 Calculate and Plot abundance over the years (http://www.myexperiment.org/packs/664.html)This table containing the demographic data on a series of individuals during 7 years, from 1987 to 1993 (6 periods: 1987-1988, 1988-1989 etc....

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Log-log plots of variance vs. sensitivity and CV vs....

Created: 2014-08-21 09:16:10

Credits: User Maria Paula Balcazar-Vargas User Mikolaj Krzyzanowski User Jon Giddy User Francisco Quevedo User Gerard Oostermeijer

Attributions: Workflow Log-log plots of variance vs. sensitivity and CV vs. elasticity in matrix elements

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.This workflow creates log-log plots of both variance vs. sensitivity and CV vs. elasticity in matrix elements. Plots are based on Figure 2 in Pfister (1998).

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Life Table Response Experiments Fixed design year ef...

Created: 2014-08-21 08:05:38

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

Attributions: Workflow Life Table Response Experiment year effect for multiple places

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 Life Table Response Experiments Year Effect for Multiple Places workflow provides an environment to analyse two or more matrices (e.g., two or more matrices of different years from one place) at two or more different locations. The objective of this workflow is to determine the effects of the research years (2 or more) on λ. This workflow performs a fixed LTRE, o...

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Avatar Jamie Wittenberg
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Blob southern md

Created: 2014-08-17 20:26:57

Credits: User Jamie Wittenberg

License: Creative Commons Attribution-Share Alike 3.0 Unported License

movie of southern md

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Blob hobie

Created: 2014-08-17 20:26:30

Credits: User Jamie Wittenberg

License: Creative Commons Attribution-Share Alike 3.0 Unported License

picture of hobie

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Mean matrix documentation

Created: 2014-08-14 17:52:17 | Last updated: 2014-08-28 13:50:22

Credits: User Maria Paula Balcazar-Vargas User Mikolaj Krzyzanowski User Jon Giddy User Francisco Quevedo User Gerard Oostermeijer

Attributions: Workflow Mean matrix

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.This workflow estimates the mean matrix from a list of matrices.

File type: Adobe PDF

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Calculate the quasi-extinction probability documenta...

Created: 2014-08-14 12:05:06

Credits: User Maria Paula Balcazar-Vargas User Mikolaj Krzyzanowski User Jon Giddy User Francisco Quevedo User Gerard Oostermeijer

Attributions: Workflow Calculate quasi-extinction threshold.

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.This workflow estimates by simulation the quasi-extinction probability time cumulative distribution function for a structured population in an independently and identically distributed (iid) stochastic environment. This workflow is based on the popbio package (stoch.quasi.ext - Calculate quasi-extinction threshold, Stubben, Milligan and Nantel, 2013) based on the MATLAB cod...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Life Table Response Experiments Fixed design years e...

Created: 2014-08-14 08:44:30 | Last updated: 2014-08-14 08:45:27

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

Attributions: Workflow Life Table Response Experiment Year Effect in One Location or Place

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 Life Table Response Experiments Effect of Years in One Place workflow provides an environment to analyse two or more matrices from different years in one location. The objective of this workflow is to determine the effects of the research years (2 or more) in one place on λ. This workflow performs a fixed LTRE, one way design (Caswell 2001).LTRE is a retrospectiv...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Life Table Response Experiments Fixed design Place e...

Created: 2014-08-14 08:03:58

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

Attributions: Workflow Life Table Response Experiment fixed design Place Effect

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 Life Table Response Experiments place effect workflow provides an environment to analyse one or more matrices (e.g. matrices of different years from the same place) from two or more places. The objective of this workflow is to determine the effects of the research places or localities (2 or more) on λ. This workflow performs a fixed LTRE, one way design (Caswell ...

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3899?size=60x60 Se Sarah Bourlat
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Blob usability test file Sarah

Created: 2014-08-07 09:51:23 | Last updated: 2014-08-07 09:53:17

Credits: User Sarah Bourlat User Rekha Maryanne Louis

License: Creative Commons Attribution-Noncommercial-No Derivative Works 3.0 Unported License

usability trial

File type: PowerPoint 2007 presentation

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4196?size=60x60 Biodiversity eLaboratory
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Blob Alexandrium minutum potential distribution in the Ba...

Created: 2014-08-04 15:24:08 | Last updated: 2015-02-16 11:52:32

Credits: User Biomobst User Sarah Bourlat

License: Creative Commons Attribution-Share Alike 3.0 Unported License

The potential distribution  of Alexandrium minutum in the Baltic Sea

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4196?size=60x60 Biodiversity eLaboratory
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Blob Alexandrium minutum potential distribution

Created: 2014-08-04 15:21:24 | Last updated: 2015-02-16 11:53:00

Credits: User Biomobst User Sarah Bourlat

License: Creative Commons Attribution-Share Alike 3.0 Unported License

The potential distribution of Alexandrium minutum

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4196?size=60x60 Biodiversity eLaboratory
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Blob Fucus vesiculosus current and 2050 difference

Created: 2014-08-04 11:35:16

Credits: User Sonja Leidenberger

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This PNG gives a low resolution image for the difference between the current and predicted 2050 niches for Fucus vesiculosus

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4196?size=60x60 Biodiversity eLaboratory
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Blob Fucus vesiculosus 2050 distribution

Created: 2014-08-04 11:33:48 | Last updated: 2014-08-04 13:04:48

Credits: User Sonja Leidenberger

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This PNG gives a low resolution image of the niche predicted for Fucus vesiculosus in 2050

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4196?size=60x60 Biodiversity eLaboratory
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Blob Fucus vesiculosus current distribution

Created: 2014-08-04 11:31:25 | Last updated: 2015-02-16 10:07:57

Credits: User Sonja Leidenberger

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This PNG gives a low-resolution picture of the predicted current niche of Fucus vesilosus

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4196?size=60x60 Biodiversity eLaboratory
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Blob Fucus vesiculosus occurrences from GBIF

Created: 2014-08-04 11:24:58

Credits: User Sonja Leidenberger

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This spreadsheet indicates the source of occurrences of Fucus vesiculosus retrieved from GBIF.

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Simulate stochastic growth from a sequence of matric...

Created: 2014-07-30 13:47:47

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Francisco Quevedo User Mikolaj Krzyzanowski User Gerard Oostermeijer

Attributions: Workflow Simulate stochastic growth from a sequence of matrices

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 Simulate stochastic growth from a sequence of matrices Workflow provides an environment to simulate stochastic growth by projection using whole matrix selection techniques in an independently and identically distributed (iid) environment from a set of 2 or more projection matrices.Outputs:Equal selection dataStochastic projectionUnequal selection dataTo know more detail...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Stage vectors, Survival and Growth rate curves (demo...

Created: 2014-07-25 12:41:06

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

Attributions: Workflow Stages vectors plots, Survival and Growth rate curves

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 Stages vectors plots, Survival and Growth rate curves Workflow provides an environment to perform several analyses on a series of stage-matrices:Population projectionSurvival values calculations per stage per year and its respective plot;Growth rates (lambda) calculations per year and its respective plot;Stage Vectors calculations and their respective plots.

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Transient dynamics documentation

Created: 2014-07-25 12:16:46

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

Attributions: Workflow Transient Dynamics.

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 Transient dynamics or Calculate population growth rates by projection Workflow provides an environment to calculates the population growth rate and stable stage distribution by repeated projections of the equation n(t+1)=An(t) and to produce plots of the short-term dynamics and convergence to stable stage distribution using stage vector projections.Transient dynamic ana...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Net reproductive rate (Ro) documentation

Created: 2014-07-25 11:25:19

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

Attributions: Workflow Net reproductive rate (Ro)

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 Net reproductive rate (Ro) Workflow provides an environment to calculate the net reproductive rate (Ro). Ro is the mean number of offspring by which a new-born 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.

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Generation Time (T) documentation

Created: 2014-07-25 11:22:18

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

Attributions: Workflow Generation time (T)

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 Generation Time (T) Workflow provides an environment to calculate the generation time. The generation time is the time T required for the population to increase by a factor of Ro (net reproductive rate). In other words, T calculates how much time takes to a plant/animal to replace itself by a factor of Ro.

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

Created: 2014-07-25 11:18:44

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

Attributions: Workflow Eigen 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 same name.The Eigen analysis workflow provides an environment for the analysis of a stage-matrix and perform several analyses on it.The Eigen analysis results are a set of demographic statistics:Lambda or dominant eigenvalue (λ).The stable stage distribution (w).The sensitivity matrixThe Elasticity matrix.Reproductive value (v).The damping ratio (ρ)

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Damping ratio documentation

Created: 2014-07-25 11:07:01

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

Attributions: Workflow Damping ratio

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 Damping ratio Workflow provides an environment to calculate the damping ratio of several matrices and plot them.The damping ratio can be considered as a measure of the intrinsic resilience of the population, describing how quickly transient dynamics decay following disturbance or perturbation regardless of population structure, the larger the p, the quicker the populati...

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Matrix population models construction documentation

Created: 2014-07-25 11:02:01

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

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run a workflow) explains how to run a workflow that beolngs to the pack with the same name.The Creation of a stage matrix model Workflow provides an environment to construct a stage matrix model. This workflow create a stage matrix based on two years census data that contains transitions probabilities from each stage to the next, of tagged or mapped individuals of an animal or plant population. The resulting is a stage matrix model.

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