Calculates the environs for an ecological network.
Usage
enaEnviron(
x,
input = TRUE,
output = TRUE,
type = "unit",
err.tol = 1e-10,
balance.override = FALSE
)Arguments
- x
A network object.
- input
Should the input environ be calculated?
- output
Should the output environ be calculated?
- type
Specifies the type of environs ("unit" or "realized") to be calculated.
- err.tol
Error threshold for numerical error fluctuations in flows. Values below err.tol will be set to zero.
- balance.override
Logical specifying whether (TRUE) or not (FALSE) the model needs to be balanced prior to calculations. If TRUE and the model is not balanced, environs will not be calculated.
References
Fath, B.D. and S.R. Borrett. 2006. A MATLAB function for network environ analysis. Environmental Modelling & Software 21:375-405.
Examples
data(troModels)
enaEnviron(troModels[[6]])
#> $input
#> $input$PLANTS
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS y
#> PLANTS -1 0 0 0 0 1
#> BACTERIA 0 0 0 0 0 0
#> DETRITUS FEEDERS 0 0 0 0 0 0
#> CARNIVORES 0 0 0 0 0 0
#> DETRITUS 0 0 0 0 0 0
#> z 1 0 0 0 0 0
#>
#> $input$BACTERIA
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS -0.9332703 0.000000 0.000000000 0.00000000 0.93327028
#> BACTERIA 0.0000000 -1.169351 0.001213296 0.00000000 0.16813787
#> DETRITUS FEEDERS 0.0000000 0.000000 -0.038566625 0.01754939 0.02101723
#> CARNIVORES 0.0000000 0.000000 0.000000000 -0.01754939 0.01754939
#> DETRITUS 0.0000000 1.169351 0.037353329 0.00000000 -1.20670450
#> z 0.9332703 0.000000 0.000000000 0.00000000 0.06672972
#> y
#> PLANTS 0
#> BACTERIA 1
#> DETRITUS FEEDERS 0
#> CARNIVORES 0
#> DETRITUS 0
#> z 0
#>
#> $input$`DETRITUS FEEDERS`
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS -0.9332703 0.0000000 0.00000000 0.00000000 0.93327028
#> BACTERIA 0.0000000 -0.2008109 0.03267303 0.00000000 0.16813787
#> DETRITUS FEEDERS 0.0000000 0.0000000 -1.03856662 0.01754939 0.02101723
#> CARNIVORES 0.0000000 0.0000000 0.00000000 -0.01754939 0.01754939
#> DETRITUS 0.0000000 0.2008109 1.00589360 0.00000000 -1.20670450
#> z 0.9332703 0.0000000 0.00000000 0.00000000 0.06672972
#> y
#> PLANTS 0
#> BACTERIA 0
#> DETRITUS FEEDERS 1
#> CARNIVORES 0
#> DETRITUS 0
#> z 0
#>
#> $input$CARNIVORES
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS -0.9332703 0.0000000 0.00000000 0.000000 0.93327028
#> BACTERIA 0.0000000 -0.2008109 0.03267303 0.000000 0.16813787
#> DETRITUS FEEDERS 0.0000000 0.0000000 -1.03856662 1.017549 0.02101723
#> CARNIVORES 0.0000000 0.0000000 0.00000000 -1.017549 0.01754939
#> DETRITUS 0.0000000 0.2008109 1.00589360 0.000000 -1.20670450
#> z 0.9332703 0.0000000 0.00000000 0.000000 0.06672972
#> y
#> PLANTS 0
#> BACTERIA 0
#> DETRITUS FEEDERS 0
#> CARNIVORES 1
#> DETRITUS 0
#> z 0
#>
#> $input$DETRITUS
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS -0.9332703 0.0000000 0.000000000 0.00000000 0.93327028
#> BACTERIA 0.0000000 -0.1693512 0.001213296 0.00000000 0.16813787
#> DETRITUS FEEDERS 0.0000000 0.0000000 -0.038566625 0.01754939 0.02101723
#> CARNIVORES 0.0000000 0.0000000 0.000000000 -0.01754939 0.01754939
#> DETRITUS 0.0000000 0.1693512 0.037353329 0.00000000 -1.20670450
#> z 0.9332703 0.0000000 0.000000000 0.00000000 0.06672972
#> y
#> PLANTS 0
#> BACTERIA 0
#> DETRITUS FEEDERS 0
#> CARNIVORES 0
#> DETRITUS 1
#> z 0
#>
#>
#> $output
#> $output$PLANTS
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS -1 0.0000000 0.000000000 0.00000000 0.79408083
#> BACTERIA 0 -0.4343412 0.006258519 0.00000000 0.13351506
#> DETRITUS FEEDERS 0 0.0000000 -0.198937442 0.03087536 0.01668938
#> CARNIVORES 0 0.0000000 0.000000000 -0.03087536 0.01393563
#> DETRITUS 0 0.4343412 0.192678923 0.00000000 -0.95822091
#> z 1 0.0000000 0.000000000 0.00000000 0.00000000
#> y
#> PLANTS 0.20591917
#> BACTERIA 0.29456761
#> DETRITUS FEEDERS 0.15137270
#> CARNIVORES 0.01693972
#> DETRITUS 0.33120080
#> z 0.00000000
#>
#> $output$BACTERIA
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS 0 0.0000000 0.00000000 0.00000000 0.000000000
#> BACTERIA 0 -1.1693512 0.01684944 0.00000000 0.359454730
#> DETRITUS FEEDERS 0 0.0000000 -0.09197564 0.01427474 0.007716077
#> CARNIVORES 0 0.0000000 0.00000000 -0.01427474 0.006442924
#> DETRITUS 0 0.1693512 0.07512620 0.00000000 -0.373613731
#> z 0 1.0000000 0.00000000 0.00000000 0.000000000
#> y
#> PLANTS 0.000000000
#> BACTERIA 0.793046998
#> DETRITUS FEEDERS 0.069984817
#> CARNIVORES 0.007831818
#> DETRITUS 0.129136367
#> z 0.000000000
#>
#> $output$`DETRITUS FEEDERS`
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS 0 0.00000000 0.000000000 0.0000000 0.00000000
#> BACTERIA 0 -0.08420272 0.001213296 0.0000000 0.02588364
#> DETRITUS FEEDERS 0 0.00000000 -1.038566625 0.1611869 0.08712807
#> CARNIVORES 0 0.00000000 0.000000000 -0.1611869 0.07275194
#> DETRITUS 0 0.08420272 0.037353329 0.0000000 -0.18576365
#> z 0 0.00000000 1.000000000 0.0000000 0.00000000
#> y
#> PLANTS 0.00000000
#> BACTERIA 0.05710578
#> DETRITUS FEEDERS 0.79025162
#> CARNIVORES 0.08843499
#> DETRITUS 0.06420761
#> z 0.00000000
#>
#> $output$CARNIVORES
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS 0 0.0000000 0.000000000 0.00000000 0.000000000
#> BACTERIA 0 -0.2468772 0.003557309 0.00000000 0.075889256
#> DETRITUS FEEDERS 0 0.0000000 -0.113074992 0.01754939 0.009486157
#> CARNIVORES 0 0.0000000 0.000000000 -1.01754939 0.459272292
#> DETRITUS 0 0.2468772 0.109517683 0.00000000 -0.544647706
#> z 0 0.0000000 0.000000000 1.00000000 0.000000000
#> y
#> PLANTS 0.00000000
#> BACTERIA 0.16743067
#> DETRITUS FEEDERS 0.08603944
#> CARNIVORES 0.55827710
#> DETRITUS 0.18825279
#> z 0.00000000
#>
#> $output$DETRITUS
#> PLANTS BACTERIA DETRITUS FEEDERS CARNIVORES DETRITUS
#> PLANTS 0 0.0000000 0.000000000 0.00000000 0.00000000
#> BACTERIA 0 -0.5469735 0.007881463 0.00000000 0.16813787
#> DETRITUS FEEDERS 0 0.0000000 -0.250525431 0.03888188 0.02101723
#> CARNIVORES 0 0.0000000 0.000000000 -0.03888188 0.01754939
#> DETRITUS 0 0.5469735 0.242643968 0.00000000 -1.20670450
#> z 0 0.0000000 0.000000000 0.00000000 1.00000000
#> y
#> PLANTS 0.00000000
#> BACTERIA 0.37095418
#> DETRITUS FEEDERS 0.19062631
#> CARNIVORES 0.02133249
#> DETRITUS 0.41708701
#> z 0.00000000
#>
#>