myExperiment

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Maria Paula Balcazar-Vargas

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Net reproductive rate (Ro) pack

Created: 2014-07-04 13:59:07 | Last updated: 2014-07-25 11:25:32

This pack contains a workflow, a file and documentation (tutorial to run the workflow).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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Maria Paula Balcazar-Vargas

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Generation time (T) pack

Created: 2014-07-04 13:20:43 | Last updated: 2014-07-25 11:22:30

This pack contains a workflow, a file and documentation (tutorial to run the workflow).The Generation Time (T) Workflow provides an environment to calculate the generation time. Th 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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Maria Paula Balcazar-Vargas

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Transient dynamics pack

Created: 2014-07-04 10:59:17 | Last updated: 2014-07-25 12:17:07

This pack contains a workflow, a file and documentation (tutorial to run the workflow).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 analysisPopulation projectionLambda o...

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Maria Paula Balcazar-Vargas

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Eigen analysis pack

Created: 2014-07-03 15:57:49 | Last updated: 2014-07-25 11:18:57

This pack contains a workflow, a file and documentation (tutorial to run the workflow).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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Maria Paula Balcazar-Vargas

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Damping ratio pack

Created: 2014-07-02 13:32:31 | Last updated: 2014-07-25 11:07:16

This pack contains a workflow, a file and documentation (tutorial to run the workflow).The Damping ratio pack contains a workflow that 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 population converges ...

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Maria Paula Balcazar-Vargas

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Age specific survival analysis pack

Created: 2014-07-02 11:49:01 | Last updated: 2015-05-19 09:46:30

This pack contains a workflow, a file and documentation (tutorial to run the workflow).The age-specific survival analysis pack has a workflow that analyse the basic information on the mean, variance and coefficient of variation (CV) of the time spent in each stage class and the mean and variance of the time to death.Analyses:Fundamental matrix (N)Variance (var)Coefficient of variation (CV)MeanetaVareta

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Yuliya Fetyukova

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usability test pack4

Created: 2014-06-30 12:23:23 | Last updated: 2014-06-30 12:24:21

test

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John Pybus

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Test Pack

Created: 2014-06-25 12:46:21 | Last updated: 2014-06-25 16:27:41

Testing Pack as RO

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Boltmwj1

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test

Created: 2014-06-21 17:59:54

test

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Maria Paula Balcazar-Vargas

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Matrix Population Model construction pack

Created: 2014-06-19 11:23:27 | Last updated: 2014-07-25 12:48:25

This pack contains a workflow, a file and documentation (tutorial to run the workflow).Creation of a stage matrix model from demographic monitoring of individuals in an animal or plant population Workflow for local executionThe Creation of a stage matrix model Workflow allows us to construct a stage o several stage matrices. 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...

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Cynthia Gibas

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Assembly comparison workflow

Created: 2014-06-15 20:05:38 | Last updated: 2014-06-15 20:07:45

This pack contains workflows used in the paper "Impact of Analytic Provenance in Genome Analysis" by Shatavia Morrison et al. presented at ISBRA 2013 and other MSS currently in preparation.

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Rekha Maryanne Louis

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usability test pack

Created: 2014-06-10 12:40:58

This is a test pack created for usability study of myExperiment from May to August 2014

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Marco Roos

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BioSemantics Concept Profile Generation Workflows

Created: 2014-06-04 12:31:09 | Last updated: 2014-06-04 13:01:44

This pack compiles concept profile-generation workflows by the LUMC/EMC Biosemantics groups.This work is made possible by EU projects 'Workflow Forever' (www.wf4ever-project.org) and RD-Connect (www.rd-connect.eu), and contribution from bioinformatics students from the Hogeschool Leiden.

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Eleni

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Supporting material for Mina et al., Journal of Biom...

Created: 2014-05-31 12:25:42 | Last updated: 2017-04-19 10:38:13

This pack contains the link to the AllegroGraph triple store and the SPARQL endpoint for the nanopublications presented in this paper. The user can login with username: test and password: tester

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Ferenc HORVATH

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Preparatory working with Biome-BGC Projects database...

Created: 2014-05-26 06:10:06 | Last updated: 2014-05-27 15:23:06

Various meteorology, EPC (ecophysiology parameter) and observation files for Biome-BGC simulation runs.

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Ferenc HORVATH

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Understanding Basics of a Biome-BGC simulation run

Created: 2014-05-21 04:31:40 | Last updated: 2014-05-21 05:03:34

Biome-BGC is a biogeochemical model that simulates the storage and flux of water, carbon, and nitrogen between the ecosystem and the atmosphere, and within the components of the terrestrial ecosystems (Thornton, 2000). The Biome-BGC was developed by the Numerical Terradynamic Simulation Group (NTSG), University of Montana.The executable code of Biome-BGC are embedded in web services and workflows, while input and parameter files or datasets are managed with Biome-BGC Projects d...

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