Download Version 1.2.31 Release date, February 16, 2002

GEArrayAnalyzer User Manual
Table of contents
1 GETTING STARTED .......................................................................................................... 3
1.1
INTRODUCTION ................................................................................................................................ 3
1.2
SYSTEM REQUIREMENT ................................................................................................................... 3
1.3
INSTALLATION ................................................................................................................................. 3
1.4
BACKGROUND INFORMATION FOR USING THE SOFTWARE ................................................................ 4
1.4.1
Overview of data analysis....................................................................................................... 4
1.4.2
Recording your array image................................................................................................... 4
1.4.3
Converting the image file into the raw data file ..................................................................... 4
1.4.3
The Format of the Raw Data File ............................................................................................. 7
FOR USING RAW DATA TABLES IN GEARRAYANALYZER, PLEASE REFER TO
INSTRUCTION IN SECTION 2.2.4, INPUT DATA FILES.................................................................... 8
2 USING GEARRAYANALYZER .................................................................................. 9
2.1
DATA PROCESSING OPTIONS ............................................................................................................ 9
2.1.1
Background subtraction.......................................................................................................... 9
2.1.2
Normalize to Positive Controls or to the median value of the experiment.............................. 9
2.1.3
Normalizing All Experiments to Specific Experiments ......................................................... 10
2.2
STEP-WISE GUIDE FOR DATA ANALYSIS ......................................................................................... 10
2.2.1
Opening window ................................................................................................................... 10
2.2.2
Import Gene List ................................................................................................................... 10
2.2.3
Saved analysis....................................................................................................................... 11
2.2.4
New analysis ......................................................................................................................... 11
2.2.5
Data Analysis Window.......................................................................................................... 13
3 GEARRAY DATA ANALYSIS FREQUENTLY ASKED
QUESTIONS...................................................................................................................................... 16
2