In addition to the source code used for producing them, this release contains the simulation data used for the figures in The American Naturalist.
Files with .csv
extension are in comma separated value format (without column header row). Files with .db
extension are SQLite3 database files. Both have a common format, where the first column (named a6e
in table br4nches
in the .db
files) is the full age of the simulated tree, and remaining columns g⟨ℓ⟩ are the counts of subbranches ℓ growth cycles younger than the branch being sampled; the averages of these values are thus what our function g(ℓ,n) should approximate. Files whose name begins with wholetree
take the entire (simulated) tree as one sample, whereas those whose name begins with branches
take each (again simulated) branch of a given age as a separate sample; that is why the latter are much larger.
The rest of the filenames encode the parameter values and growth method used in the simulation. For branches
the order of parameters is µ-ß-d-p. For wholetree-rgrow
the order is ß-d-p, whereas µ is random for each bud (at a distribution of 20%/60%/20% between values 1, 2, and 3); the same random µ distribution is used for wholetree-random
, whereas it is µ=2 for wholetree-fixed
. Remaining parameters for wholetree-fixed
and wholetree-random
are in order ß-d-p-q.