- new auto/th/R-vsn-3.26.0-1
authorJan Rękorajski <baggins@pld-linux.org>
Thu, 18 Oct 2012 11:35:18 +0000 (13:35 +0200)
committerJan Rękorajski <baggins@pld-linux.org>
Thu, 18 Oct 2012 11:35:18 +0000 (13:35 +0200)
R-vsn.spec [new file with mode: 0644]

diff --git a/R-vsn.spec b/R-vsn.spec
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+%define                packname        vsn
+
+Summary:       Variance stabilization and calibration for microarray data
+Name:          R-%{packname}
+Version:       3.26.0
+Release:       1
+License:       Artistic 2.0
+Group:         Applications/Engineering
+Source0:       http://bioconductor.org/packages/release/bioc/src/contrib/%{packname}_%{version}.tar.gz
+# Source0-md5: dc3543c14aa178d9f7a3fa4ee45fb43c
+URL:           http://bioconductor.org/packages/release/bioc/html/%{packname}.html
+BuildRequires: R
+BuildRequires: R-Biobase
+BuildRequires: R-limma
+BuildRequires: R-affy
+BuildRequires: texlive-latex
+Requires:      R
+Requires:      R-Biobase
+Requires:      R-limma
+Requires:      R-affy
+BuildRoot:     %{tmpdir}/%{name}-%{version}-root-%(id -u -n)
+
+%description
+The package implements a method for normalising microarray
+intensities, both between colours within array, and between arrays.
+The method uses a robust variant of the maximum-likelihood estimator
+for the stochastic model of microarray data described in
+the references (see vignette). The model incorporates data calibration
+(a.k.a. normalization), a model for the dependence of the variance on
+the mean intensity, and a variance stabilizing data transformation.
+Differences between transformed intensities are analogous to
+"normalized log-ratios". However, in contrast to the latter, their
+variance is independent of the mean, and they are usually more
+sensitive and specific in detecting differential transcription.
+
+%prep
+%setup -q -c -n %{packname}
+
+%build
+
+%install
+rm -rf $RPM_BUILD_ROOT
+install -d $RPM_BUILD_ROOT%{_libdir}/R/library
+
+R CMD INSTALL %{packname} -l $RPM_BUILD_ROOT%{_libdir}/R/library
+
+%clean
+rm -rf $RPM_BUILD_ROOT
+
+%files
+%defattr(644,root,root,755)
+%dir %{_libdir}/R/library/%{packname}
+%doc %{_libdir}/R/library/%{packname}/doc
+%doc %{_libdir}/R/library/%{packname}/html
+%doc %{_libdir}/R/library/%{packname}/DESCRIPTION
+%doc %{_libdir}/R/library/%{packname}/CITATION
+%{_libdir}/R/library/%{packname}/INDEX
+%{_libdir}/R/library/%{packname}/NAMESPACE
+%{_libdir}/R/library/%{packname}/Meta
+%{_libdir}/R/library/%{packname}/R
+%{_libdir}/R/library/%{packname}/help
+%{_libdir}/R/library/%{packname}/data
+%{_libdir}/R/library/%{packname}/scripts
+%dir %{_libdir}/R/library/%{packname}/libs
+%attr(755,root,root) %{_libdir}/R/library/%{packname}/libs/vsn.so
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