Microarray analysis with Bioconductor R BCB Home微阵列分析与Bioconductor ampr 这是家.pptVIP

Public Microarray Data ArrayExpress 21997 Studies (622,617 profiles,) GEO 22,735 Studies (558,074 profiles) Statistics May 2011 R Code May 2011 * More on GEOquery May 2011 * require(GEOquery) Lets try to load the GDS810 dataset which contains data on Alzheimers disease at various stages of severity. GDS810-getGEO(GDS810) The getGEO function returns an object of class GEOData. You can get a description of this class like this: help(GEOData-class) Meta(GDS810) Columns(GDS810) head(Table(GDS810)) Assessing Data Quality May 2011 * ExpressionSet Class in R May 2011 * R basics: Getting help To get help ?mean help(mean) help.search(“mean”)? apropos(mean) example(mean)? /help/ * * * * * * * * * * * * * * * * * Introduction to R Aedín Culhane aedin@ /~aedin /research/aedin-culhane/ Jan 2009 Data Analysts Captivated by R’s Power R is really important to the point that it’s hard to overvalue it,” said Daryl Pregibon, a research scientist at Google, which uses the software widely. “It allows statisticians to do very intricate and complicated analyses without knowing the blood and guts of computing systems.” Nov 10 2010 Names You Need to Know in 2011: R Data Analysis Software R is rapidly augmenting or replacing other statistical analysis packages at universities Open source, development- flexible, extensible Large number of statistical and numerical methods High quality visualization and graphical tools Extended by a very large collection of rapidly developing packages R Why is it called R? The name is partly based on the (first) names of the first two R authors and partly a play on the name of the Bell Labs language ‘S Initially written by Robert Gentleman, Ross Ihaka, Dept of Statistics, University of Auckland, New Zealand (1996) Short R History ?1991: Ross Ihaka, Robert Gentleman begin work on a project that will become R 1993: The first announcement of R 1995: R available by ftp 1996: A mailing list is started and maintaine