graph.params2qpGraphFiles: Generate files for the qpGraph software from a graph.params...

In poolfstat: Computing f-Statistics and Building Admixture Graphs Based on Allele Count or Pool-Seq Read Count Data

Generate files for the qpGraph software from a graph.params object

Description

Generate files for the qpGraph software from a graph.params object

Usage

graph.params2qpGraphFiles(
  graph.params,
  outfileprefix = "out",
  n.printed.dec = 4,
  verbose = TRUE
)

Arguments

graph.params	An object of class graph.params containing graph information with Fstats information (see the function generate.graph.params)
outfileprefix	The prefix of the qpGraph files
n.printed.dec	Number of decimal to be printed (if not enough may lead to fatalx error in qpGraph)
verbose	If TRUE extra information is printed on the terminal

Details

This function generates the three files required by qpGraph: i) a file named outfileprefix.graph containing the graph in appropriate format; ii) a file named outfileprefix.fstats file containing the fstats estimates of fstats (and their covariance); iii) a file named outfileprefix.parqpGraph containing essential parameter information to run qpGraph (this may be edited by hand if other options are needed). The qpGraph software may then be run using the following options -p outfileprefix.parqpGraph -g outfileprefix.graph -o out.ggg -d out.dot.

Value

The three files described in the details section

See Also

To generate graph.params object, see generate.graph.params

poolfstat documentation built on Sept. 8, 2023, 5:49 p.m.