1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
|
\name{PMIDAmat}
\alias{PMIDAmat}
\title{A function to compute the probe to PubMed id incidence matrix.}
\description{
For a given chip or a given set of genes, it computes the mapping from
probes to PubMed id.
}
\usage{
PMIDAmat(pkg, gene=NULL)
}
\arguments{
\item{pkg}{The package name of the chip for which the incidence matrix should
be computed.}
\item{gene}{A character vector of interested probe set ids or NULL (default).}
}
\details{
Not much to say, just find which probes are associated with which
PubMed ids and return the incidence matrix, with PubMed ids as rows and probes as
columns.
To specify a set of probes to use, let the argument \code{gene} to be
a vector of probe ids. Bt this way, the calculations are not
involved with non-interested genes/PubMed ids so that the whole
process could finish soon.
}
\value{
A matrix containing zero or one, depending on whether the probe
(column) is associated with a PubMed id (row).
}
\author{R. Gentleman}
\examples{
library("hgu95av2.db")
probe <- names(as.list(hgu95av2ACCNUM))
Amat <- PMIDAmat("hgu95av2", gene=sample(probe, 10))
}
\keyword{manip}
|
