1. Course: Statistics in Bioinformatics Date:20070430 指導教授: 陳光琦 學生: 吳昱賢
midterm project
Course: Statistics in Bioinformatics
Date:
指導教授: 陳光琦
學生: 吳昱賢

2. What is BioConductor? What is BioConductor? As the website saying
Bioconductor is an open source and open development software project for the analysis and comprehension of genomic data.

3. Outline
軟體資訊
功能簡介
相關教學
使用心得

4. Bioconductor
R software project for the analysis and comprehension of biomedical and genomic data.
Gene expression arrays (cDNA, Affymetrix)
Pathway graphs
Genome sequence data
Started in 2001 by Robert Gentleman, Dana Farber Cancer Institute.
About 25 core developers, at various institutions in the US and Europe.
Tools for integrating biological metadata from the web (annotation, literature) in the analysis of experimental metadata.
End-user and developer packages.

5. Example R/BioC Packages
methods
Class/method tools
tools
tkWidgets
Sweave(),gui tools
marrayTools, marrayPlots
Spotted cDNA array analysis
affy
Affymetrix array analysis
annotate
Link microarray data to metadata on the web
mva, cluster, clust, class
Clustering and classification
t.test, prop.test, wilcox.test
Statistical tests

6. wiki
most of the content on this wiki is aimed at developers of Bioconductor packages.

7. Demo
Install R and Bioconductor packages.

15. > MAplot(affybatch.example)

18. 使用範例學習

19. R console

21. 結論
1.Bioconductor is a useful tool in dealing with static problem on microarray
2.affy example show the power of the R
3. I benefit a lots from this report like how to use bioC in R.