Replays the history and applies it to a genlight object
Replays the history and applies it to a genlight object
gl.play.history(x, history = NULL, verbose = 0)
x |
– a genlight object [with a history slot [optional]] |
history |
– [optional]. If no history is provided the complete history of x is used (recreating the identical object x). If history is a vector it indicates which which part of the history of x is used [ |
verbose |
[default 0]. If set to one then history commands are printed, which may facilitate reading the output. |
This function basically allows to create a "template history" (=set of filters) and apply them to any other genlight object. Histories can also be saved and loaded (see. gl.save.history and gl.load.history).
returns a genlight object that was created by replaying the provided applied to the genlight object x. Please note you can "mix" histories or part of them and apply them to different genlight objects. If the history does not contain gl.read.dart, histories of x and history are concatenated.
Bernd Gruber (bugs? Post to https://groups.google.com/d/forum/dartr)
dartfile <- system.file("extdata","testset_SNPs_2Row.csv", package="dartR")
metadata <- system.file("extdata","testset_metadata.csv", package="dartR")
gl <- gl.read.dart(dartfile, ind.metafile = metadata, probar=FALSE)
gl2 <- gl.filter.callrate(gl, method="loci", threshold=0.9)
gl3 <- gl.filter.callrate(gl2, method="ind", threshold=0.95)
#Now "replay" part of the history "onto" another genlight object
bc.fil <- gl.play.history(gl.compliance.check(bandicoot.gl),
history=gl3@other$history[c(2,3)], verbose=1)
gl.print.history(bc.fil)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.