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Cleaver – Classification of
Expression Array Version 1.0
Hongli Li
Spring 2003 91.580 Computational Biology
Computer Science Department
UMASS Lowell
Cleaver
http://classify.stanford.edu/index.html
Features


Graphical and Text Output and Storage
Take tab-delimited Text Input File
GeneName
Attr1
Attr2
Attr3
Attr4
Attr5
Gene 1
X11
X12
X13
X14
X15
Gene 2
X21
X22
X23
X24
X25
Gene 3
X31
X32
X33
X34
X35
Features (Cont.)

Data Transformation




Column/Row Normalize
Row/Column Rank
Log
Missing Values



Zero Fill
Average Over Genes
Average Over Arrays
Analysis Methods

K-means Cluster







Euclidean Distance
Manhattan Distance
Correlation based
Variance Scaled
Covariance Scaled
Principal Component Analysis
Classification
K-means Cluster
PCA – Principal Component Analysis
Classification
Conclusion




Easy to use
Include common analysis methods
The Data transformation is very good
The more packages can be find in

http://ihome.cuhk.edu.hk/~b400559/arraysoft_mini
ng_specific.html
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