run.BayeScan: Run BayeScan
In paleo13/bayescanr: BayeScan Analysis in R

Description Usage Arguments See Also Examples

This function analysis data using BayeScan.

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run.BayeScan(x, threads = 1, reps = 3, n = 5000, thin = 10, nbp = 20,
  pilot = 5000, burn = 50000, fdr = 0.1, dir = tempdir(),
  clean = TRUE)

`x`	`BayeScanData` object.
`threads`	`numeric` number of threads used for computation. Defaults to 1.
`reps`	`numeric` number of replicate runs. Defaults to 3.
`n`	`numeric` number of outputted iterations. Defaults to 5000.
`thin`	`numeric` thinning interval size. Defaults to 10.
`nbp`	`numeric` number of pilot runs. Defaults to 20.
`pilot`	`numeric` length of pilot runs. Defaults to 5000.
`burn`	`numeric` burn-in length. Defaults to 50000.
`fdr`	`numeric` false discovery rate used to classify loic as adaptive. Defaults to 0.1.
`dir`	`character` with directory to use for analysis.
`clean`	`logical` should input and output files be deleted after analysis is finished?

BayeScanData, BayeScanOpts.

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# run BayeScan using low number of iterations
dat <- read.BayeScanData(system.file('extdata', 'example_fstat_aflp.dat', package='bayescanr'))
x <- run.BayeScan(dat, threads=1, n=50, thin=1, nbp=10, pilot=10, burn=10)