plot.scan.gwaa {GenABEL} | R Documentation |
Plots results of GWA analysis
plot.scan.gwaa(x, y, ..., df=1, ystart=0, col=c("blue","green"), sort=TRUE, ylim, delta = 1)
x |
object of type scan.gwaa-class , as returned by scan.glm , qtscore ,
ccfast , emp.ccfast , emp.qtscore , or scan.haplo |
y |
this argument is not used |
... |
additional arguments to be passed to plot |
df |
Plot results of 1 or 2-df test (1, 2). Could be also "Pc1df" (for GC corrected P-values) and "Pc2df" (for robust genomic control of the 2 df test) |
ystart |
truncate lower value of Y at this point (can help avoiding plotting too may points) |
ylim |
ylim, same as in the standard plot function |
col |
which colors to use to depict consecutive chromosomes |
sort |
whether results should be plotted after sorting by chromosome and position |
delta |
gap width between chromosomes |
No value returned.
Yurii Aulchenko
scan.gwaa-class
,
add.plot
,
snp.subset
,
scan.glm
,
qtscore
,
ccfast
,
emp.qtscore
,
emp.ccfast
,
scan.haplo
data(srdta) a <- qtscore(bt,srdta,snps=c(1:250)) plot(a) add.plot(a,df="Pc1df",col="green")