User: Francisco Quevedo

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Killer whale demography documentation

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

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

Attributions: Killer whale demography

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

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Resident killer whale-chinook salmon interactions an...

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

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

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

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Variance matrix documentation

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

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

Attributions: Variance matrix

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

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Mean matrix documentation

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

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

Attributions: Mean matrix

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

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Log-log plots of variance vs. sensitivity and CV vs....

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

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

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

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

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Life Table Response Experiments Fixed design year ef...

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

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

Attributions: Life Table Response Experiment year effect for multiple places

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

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Calculate the quasi-extinction probability documenta...

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

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

Attributions: Calculate quasi-extinction threshold.

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

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Life Table Response Experiments Fixed design years e...

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

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

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

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

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Life Table Response Experiments Fixed design Place e...

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

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

Attributions: Life Table Response Experiment fixed design Place Effect

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Simulate stochastic growth from a sequence of matric...

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

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

Attributions: Simulate stochastic growth from a sequence of matrices

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

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Ecological niche modelling workflow (28)

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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: Renato De Giovanni Alan Williams Robert Kulawik Francisco Quevedo Vhernand BioVeL

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Exploration of fishing scenarios (1)

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This workflow must run after the workflow: Resident killer whale-chinook salmon interactions. The interaction workflows generates a PostWorkspace file, this is a zip file and it is an R Workspace that transfers values from the Resident killer whale-chinook salmon interactions (main) workflow to the Exploration of fishing scenario (post-processing) workflow. This workflow merges statistical inference derived from linkages between RKW vital rates (survival probability and fecundity rates) a...

Created: 2014-09-26

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

Attributions: Resident killer whale-chinook salmon interactions

Resident killer whale-chinook salmon inter... (1)

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The resident killer whale-chinook salmon interactions workflow provides an environment to 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 between killer whale (Orcinus orca) population that explain population growth; (ii) to determine the relative influence of vital rates and Chinook (Oncorhynchus tshawytsc...

Created: 2014-09-26

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

Attributions: Killer whale demography

Killer whale demography (1)

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This workflow analyzes the demography and population growth of resident killer whale populations. Originally created for comparative studies of Northeastern Pacific populations at risk, Southern Resident Killer Whales (SRKW) and the Northern Resident Killer Whales (NRKW), the workflow can be used for other killer whale populations or cetaceans counting with census data and life cycles that can be represented using the matrix models described in this document. This workflow perform the follow...

Created: 2014-09-24

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

Variance matrix (1)

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This workflow estimates the variance matrix from a list of matrices. This workflow has been created by the Biodiversity Virtual e-Laboratory (BioVeL http://www.biovel.eu/) project. BioVeL is funded by the EU’s Seventh Framework Program, grant no. 283359. This workflow was created using and based on Package ‘popbio’ in R. (Stubben & Milligan 2007; Stubben, Milligan & Nantel 2011). ================================================================================== Literature Caswell, H. 20...

Created: 2014-08-28

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

Log-log plots of variance vs. sensitivity ... (1)

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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). This workflow calculates as well the summary mean, variance, CV, sensitivities and elasticities of each matrix element of the submitted matrices. Please if you want to know more about this analyses please refer to: Pfister, C.A. 1998. Patterns of variance in stage-structured populations: Evolutionary predictions and ecological implica...

Created: 2014-08-21

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

Life Table Response Experiment year effect... (1)

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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 ?. This workflow performs a fixed LTRE, one way design (Caswell 2001). LTRE is a retrospective analysis (Caswell 1989), beginning with data on the vital rates and on ?...

Created: 2014-08-21

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

Mean matrix (1)

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This mean matrix workflow estimates the mean matrix from a list of matrices. This workflow has been created by the Biodiversity Virtual e-Laboratory (BioVeL http://www.biovel.eu/) project. BioVeL is funded by the EU’s Seventh Framework Program, grant no. 283359. This workflow was created using and based on Package ‘popbio’ in R. (Stubben & Milligan 2007; Stubben, Milligan & Nantel 2011). ================================================================================== Literature Caswel...

Created: 2014-08-14

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

Simulate stochastic growth from a sequence... (1)

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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. This workflow is based on the popbio package (script: stoch.projection - Simulate stochastic growth from a sequence of matrices, Stubben, Milligan and Nantel, 2013) based on the The MATLAB code in Box 7.3 (Mo...

Created: 2014-07-30 | Last updated: 2014-08-14

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

Calculate quasi-extinction threshold. (1)

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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 The MATLAB code in Box 7.5 (Morris and Doak 2002). For more details of the analysis see: Calculating the probability of hitting a q...

Created: 2014-08-14

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

Life Table Response Experiment Year Effect... (1)

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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 ?. This workflow performs a fixed LTRE, one way design (Caswell 2001). LTRE is a retrospective analysis (Caswell 1989), beginning with data on the vital rates and on ? under two or more sets of environmental conditions...

Created: 2014-08-14

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

Life Table Response Experiment fixed desig... (1)

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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 ?. This workflow performs a fixed LTRE, one way design (Caswell 2001). LTRE is a retrospective analysis (Caswell 1989), beginning with data on the vital rates and on ? under two or more set...

Created: 2014-08-13

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