isSuspicious: Determine which results are suspicious
In gwsem: Genome-Wide Structural Equation Modeling

Description Usage Arguments Details Value See Also Examples

\lifecycle

maturing The GWAS function writes all results, both valid and invalid, to a log file. This function uses heuristics to try to classify rows as suspicious or unsuspicious.

1	isSuspicious(result, pars = attr(result, "focus"))

`result`	output from loadResults
`pars`	names of the parameters available in `result`

OpenMx reports exceptions in the ‘catch1’ column. Any error message in the ‘catch1’ column is suspicious. Any optimizer status code besides ‘OK’ is suspicious. It is suspicious if the focal parameter or its standard error is NA. If ‘signAdj’ was requested and it is NA then suspicion is also aroused.

a vector of logicals for each row of result indicating suspicion (if TRUE)

Other reporting: loadResults(), plot.gwsemResult(), signifGxE(), signif()

tdir <- tempdir()
dir <- system.file("extdata", package = "gwsem")
pheno <- data.frame(anxiety=rnorm(500))
m1 <- buildItem(pheno, 'anxiety')
GWAS(m1, file.path(dir,"example.bgen"),
    file.path(tdir,"out.log"))
r1 <- loadResults(file.path(tdir,"out.log"), "snp_to_anxiety")
r1[isSuspicious(r1, "snp_to_anxiety"),]