Pack: Matrix Population Model construction and analysis pack
Title: Matrix Population Model construction and analysis pack
Description
This pack contains a workflow, a file and documentation (tutorial to run the workflow).
The Matrix Population Models Workflow provides an environment for create a stagematrix 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 curve
 Keyfitz’s Δ
 Cohen’s cumulative distance
This workflow has been created by the Biodiversity Virtual eLaboratory (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) and popdemo (Stott, Hodgson and Townley, 2013)
References
==========
 Caswell, H. 2001. Matrix population models: Construction, analysis and interpretation, 2nd Edition. Sinauer Associates, Sunderland, Massachusetts.
 Cohen, J.E. 1979. The cumulative distance from an observed to a stable age structure. SIAM Journal on Applied Mathematics, 36:169–175.
 de Kroon, H. J., A. Plaiser, J. van Groenendael, and H. Caswell. 1986. Elasticity: The relative contribution of demographic parameters to population growth rate. Ecology 67: 14271431.
 Horvitz, C., D.W. Schemske, and Hal Caswell. 1997. The relative "importance" of lifehistory stages to population growth: Prospective and retrospective analyses. In S. Tuljapurkar and H. Caswell. Structured population models in terrestrial and freshwater systems. Chapman and Hall, New York.
 Jongejans E. & H. de Kroon. 2012. Matrix models. Chapter in Encyclopaedia of Theoretical Ecology (eds. Hastings A & Gross L) University of California, p415423
 Keyfitz, N. 1968. Introduction to the Mathematics of Populations. AddisonWesley, Reading, MA, USA.
 MestertonGibbons, M. 1993. Why demographic elasticities sum to one: A postscript to de Kroon et al. Ecology 74: 24672468.
 Oostermeijer J.G.B., M.L. Brugman; E.R. de Boer; H.C.M. Den Nijs. 1996. Temporal and Spatial Variation in the Demography of Gentiana pneumonanthe, a Rare Perennial Herb. The Journal of Ecology, Vol. 84(2): 153166.
 Stott, I., S. Townley and D.J. Hodgson 2011. A framework for studying transient dynamics of population projection matrix models. Ecology Letters 14: 959–970
 Stott, I., D.J. Hodgson and S. Townley. 2013. popdemo: Provides Tools For Demographic Modelling Using Projection Matrices. Version 0.13.
 Stubben, C & B. Milligan. 2007. Estimating and Analysing Demographic Models Using the popbio Package in R. Journal of Statistical Software 22 (11): 123
 Stubben, C., B. Milligan, P. Nantel. 2011. Package ‘popbio’. Construction and analysis of matrix population models. Version 2.3.1
 van Groenendael, J., H. de Kroon, S. Kalisz, and S. Tuljapurkar. 1994. Loop analysis: Evaluating life history pathways in population projection matrices. Ecology 75: 24102415.
 Williams, J.L., M.M. Ellis, M.C. Bricker, J.F. Brodie and E.W. Parsons. 2011. Distance to stable stage distribution in plant populations and implications for nearterm population projections. Journal of Ecology, 99, 1171–1178.
Items (4)

File: Demographic data Gentiana pneumonanthe 19871991 from Terschelling File. (Maria Paula BalcazarVargas)
Added by Maria Paula BalcazarVargas ... more than 1 year ago (20130813 14:31:48)

File: Demographic data Gentiana pneumonanthe 19871988 from Terschelling File. (Maria Paula BalcazarVargas)
Added by Maria Paula BalcazarVargas ... more than 1 year ago (20140619 08:55:47)

Workflow: Matrix Population Model construction and analysis v20 (Maria Paula BalcazarVargas)
Added by Maria Paula BalcazarVargas ... more than 1 year ago (20130813 14:31:34)

File: Matrix Population Models construction and analyses documentation (Maria Paula BalcazarVargas)
Added by Maria Paula BalcazarVargas ... more than 1 year ago (20140725 10:48:36)
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Tags from Items (31)
 agespecific survival analysis
 
 analysis
 
 biovel
 
 bootstrap of observed census transitions
 
 cohen’s cumulative distance
 
 confidence interval of lambda
 
 damping ratio
 
 demography
 
 eigen analysis
 
 elasticity analysis
 
 fundamental matrix (n)
 
 generation time (t)
 
 gentiana pneumonanthe
 
 gerard oostermeijer
 
 growth rates (lambda)
 
 keyfitz’s delta
 
 lambda or dominant eigenvalue
 
 matrix
 
 matrix population models
 
 meaneta
 
 net reproductive rate (ro)
 
 package ‘popbio’ in r
 
 package ‘popdemo’ in r
 
 population
 
 reproductive value (v)
 
 sensitivity analysis
 
 stable stage distribution (w)
 
 stage matrix
 
 survival curve
 
 transient dynamics
 
 vareta
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NonInformation Resource URI: https://www.myexperiment.org/packs/483
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