[Rcpp-commits] r3214 - pkg/RcppEigen/inst/doc
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Sat Oct 22 00:46:42 CEST 2011
Author: dmbates
Date: 2011-10-22 00:46:42 +0200 (Sat, 22 Oct 2011)
New Revision: 3214
Added:
pkg/RcppEigen/inst/doc/RcppEigen-Intro.pdf
Modified:
pkg/RcppEigen/inst/doc/RcppEigen-Intro.Rnw
Log:
Added to the vignette.
Modified: pkg/RcppEigen/inst/doc/RcppEigen-Intro.Rnw
===================================================================
--- pkg/RcppEigen/inst/doc/RcppEigen-Intro.Rnw 2011-10-21 21:46:45 UTC (rev 3213)
+++ pkg/RcppEigen/inst/doc/RcppEigen-Intro.Rnw 2011-10-21 22:46:42 UTC (rev 3214)
@@ -521,10 +521,16 @@
unlist(ll <- fdet(A))
@
+Note the use of the \code{array()} method in the calculation of the
+log-determinant. Because the \code{log()} method applies to arrays,
+not to vectors or matrices, we must create an array from \code{Dvec}
+before applying the \code{log()} method.
+
\section{Least squares solutions}
\label{sec:structured}
-A common operation in statistical computing is calculating the least squares solution
+A common operation in statistical computing is calculating a least
+squares solution, $\widehat{\bm\beta}$, defined as
\begin{displaymath}
\widehat{\bm\beta}=\arg\min_{\beta}\|\bm y-\bm X\bm\beta\|^2
\end{displaymath}
@@ -537,7 +543,41 @@
without column pivoting, the singular value decomposition and the
eigendecomposition of a symmetric matrix.
+One important consideration when determining least squares solutions
+is whether $\rank(\bm X)$ is $p$, a situation we describe by saying
+that $\bm X$ has ``full column rank''. When $\bm X$ does not have
+full column rank we say it is ``rank deficient''.
+Although the theoretical rank of a matrix is well-defined, its
+evaluation in practice is not. At best we determine a computational
+rank according to some tolerance. We refer to decompositions that
+allow us to estimate the rank of the matrix in this way as
+``rank-revealing''.
+
+Because the \code{model.matrix} function in \proglang{R} does a
+considerable amount of symbolic analysis behind the scenes, we usually
+end up with full-rank model matrices. The common cases of
+rank-deficiency, such as incorporating both a constant term and a full
+set of indicators columns for the levels of a factor, are eliminated.
+Other, more subtle, situations will not be detected at this stage,
+however. A simple example occurs when there is a ``missing cell'' in a
+two-way layout and the interaction of the two factors is included in
+the model.
+
+<<missingcell>>=
+dd <- data.frame(f1 = gl(4, 6, labels = LETTERS[1:4]),
+ f2 = gl(3, 2, labels = letters[1:3]))[-(7:8), ]
+xtabs(~ f2 + f1, dd) # one missing cell
+mm <- model.matrix(~ f1 * f2, dd)
+kappa(mm) # large, indicating rank deficiency
+(c(rank=qr(mm)$rank, p=ncol(mm))) # alternative evaluation
+set.seed(1)
+dd$y <- mm %*% seq_len(ncol(mm)) + rnorm(nrow(mm), sd = 0.1)
+ # lm detects the rank deficiency
+writeLines(capture.output(print(summary(lm(y ~ f1 * f2, dd)),
+ signif.stars=FALSE))[9:22])
+@
+
\bibliographystyle{plainnat}
\bibliography{Rcpp}
Added: pkg/RcppEigen/inst/doc/RcppEigen-Intro.pdf
===================================================================
--- pkg/RcppEigen/inst/doc/RcppEigen-Intro.pdf (rev 0)
+++ pkg/RcppEigen/inst/doc/RcppEigen-Intro.pdf 2011-10-21 22:46:42 UTC (rev 3214)
@@ -0,0 +1,3104 @@
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[TRUNCATED]
To get the complete diff run:
svnlook diff /svnroot/rcpp -r 3214
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