\HeaderA{1. Dictionary}{1. Dictionary}{1. Dictionary}
\keyword{documentation}{1. Dictionary}
\begin{Description}\relax
This part describes non-obvious terms used in this package.

\describe{
\item[affxparser] The name of this package.
\item[API] Application program interface, which describes the
functional interface of underlying methods.
\item[block] (aka group).
\item[BPMAP] A file format containing information
related to the design of the tiling arrays.
\item[Calvin] A special binary file format.
\item[CDF] A file format: chip definition file.
\item[CEL] A file format: cell intensity file.
\item[cell] (aka feature) A probe.
\item[cell index] An integer that identifies a probe uniquely.
\item[chip] An array.
\item[chip type] An identifier specifying a chip design
uniquely, e.g. \code{"Mapping50K\_Xba240"}.
\item[DAT] A file format: contains pixel intensity
values collected from an Affymetrix GeneArray scanner.
\item[feature] A probe.
\item[Fusion SDK] Open-source sofware development kit (SDK) provided
by Affymetrix to access their data files.
\item[group] (aka block)
Defines a unique subset of the cells in a unit.
Expression arrays typically only have one group per unit, whereas
SNP arrays have either two or four groups per unit, one for each of
the two allele times possibly repeated for both strands.
\item[MM] Mismatch-match, e.g. MM probe.
\item[TPMAP] A file format storing the relationship between (PM,MM)
pairs (or PM probes) and positions on a set of sequences.
\item[QC] Quality control, e.g. QC probes and QC probe sets.
\item[unit] A probeset.
\item[XDA] A file format, aka as the binary file format.
}
\end{Description}
\begin{Author}\relax
Henrik Bengtsson (\url{http://www.braju.com/R/})
\end{Author}

