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Table 2 Results of the randomisation tests on six environmental variables

From: Explaining the geographic spread of emerging epidemics: a framework for comparing viral phylogenies and environmental landscape data

Environmental variable

Path model

Treated as a resistance or conductance factor

Single-tree analysis: D value (p-value)

100 trees analysis: % of trees with p < 0.05

Croplands

straight-line

not applicable

−0.013 (0.43)

7 %

 

least-cost

conductance

−0.069 (0.67)

0 %

 

least-cost

resistance

0.014 (0.39)

28 %

 

random walk

conductance

−0.061 (0.35)

1 %

 

random walk

resistance

0.012 (0.28)

27 %

Forests

straight-line path

not applicable

0.001 (0.42)

0 %

 

least-cost path

conductance

−0.046 (0.84)

0 %

 

least-cost path

resistance

0.013 (0.49)

2 %

 

random walk path

conductance

−0.064 (0.72)

3 %

 

random walk path

resistance

−0.035 (0.91)

0 %

Savannas

straight-line path

not applicable

−0.075 (0.89)

0 %

 

least-cost path

conductance

0.018 (0.17)

1 %

 

least-cost path

resistance

−0.059 (0.75)

0 %

 

random walk path

conductance

−0.003 (0.81)

4 %

 

random walk path

resistance

−0.072 (0.96)

0 %

Elevation

straight-line path

not applicable

0.055 (0.02*)

52 %

 

least-cost path

conductance

−0.072 (0.86)

0 %

 

least-cost path

resistance

0.078 (0.00*)

81 %

 

random walk path

conductance

−0.061 (0.44)

0 %

 

random walk path

resistance

0.067 (0.10)

72 %

Human density

straight-line path

not applicable

−0.076 (0.94)

0 %

 

least-cost path

conductance

0.063 (0.04)

17 %

 

least-cost path

resistance

−0.069 (0.90)

0 %

 

random walk path

conductance

−0.072 (0.99)

12 %

 

random walk path

resistance

−0.070 (0.78)

0 %

Inaccessibility

straight-line path

not applicable

0.070 (0.00*)

18 %

 

least-cost path

conductance

−0.047 (0.84)

0 %

 

least-cost path

resistance

0.089 (0.00*)

51 %

 

random walk path

conductance

−0.060 (0.66)

0 %

 

random walk path

resistance

0.077 (0.18)

35 %

  1. For each combination of environmental variable and path model, the test is applied to a single phylogeny, and to a set of 100 trees. For the former, the D statistic and p-value of the test are shown. For the latter, we report the percentage of trees for which p < 0.05
  2. (*) p-value < 0.05