Description Usage Arguments Details Value Note Author(s) See Also Examples
A common way of visualizing two principal components
1 2 |
object |
a pcaRes object |
pcs |
which two pcs to plot |
scoresLoadings |
Which should be shown scores and or loadings |
sl |
labels to plot in the scores plot |
ll |
labels to plot in the loadings plot |
hotelling |
confidence interval for ellipse in the score plot |
rug |
logical, rug x axis in score plot or not |
sub |
Subtitle, defaults to annotate with amount of explained variance. |
... |
Further arguments to plot functions. Prefix arguments
to |
This method is meant to be used as a quick way to visualize
results, if you want a more specific plot you probably want to
get the scores, loadings with scores(object)
,
loadings(object)
and then design your own plotting method.
None, used for side effect.
Uses layout instead of par to provide side-by-side so it
works with Sweave (but can not be combined with
par(mfrow=..))
Henning Redestig
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Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: 'pcaMethods'
The following object is masked from 'package:stats':
loadings
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