Description Usage Arguments Details Value
This slightly brute force function searches for all directories under a parent directory, assuming they were created with Generate_New_Sample_Data script, (see script for possible differences in directories and naming conventions for tracer exports) and collates the necessary summary statistics into one table.
1 2 3 4 5 | Old_Tracer_Accumulation(reps = 10, dirs = 15, vars = 5, var.R0 = TRUE,
N.v = c(rep(10000, dirs)), mu.v = c(rep(0.001, 5), rep(1e-04, 5),
rep(1e-05, 5)), Tg.v = c(rep(3, 15)), R0.v = c(rep(c(2, 3.5, 5, 10, 20),
3)),
root.dir = "C:/Users/Oliver/Google Drive/Academic Work/Imperial/O15-12/BEAST/Data Collection/Variable")
|
reps |
replicates total. Default = 10 |
dirs |
number of subdirectories to be scanned |
vars |
variables total. Default = 5 |
var.R0 |
boolean for whether Generation_Sim or Broken was used in data creation. Default=TRUE |
N.v |
column vector of N. Default: N.v=c(rep(10000,reps)), |
mu.v |
column vector of mutation rates in directory. Default: mu.v=c(1e-04, rep(0.001,3), rep(1e-04,3), rep(1e-05,3)), |
Tg.v |
column vector of generation times in directory. Default: Tg.v=c(1,rep(3,9)), |
R0.v |
column vector of R0 in directory. Default: R0.v=c(2,rep(c(2,5,20),3)), |
root.dir |
- root directory, omitting a final / |
Summary Statistics are clock rate, growthRate, ePop and TMRCA.
Returns a data frame of collated statstics
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