QGAStation 1.0

Software for the classical quantitative genetics

Copyright 2003 © 

Developed by Guobo Chen and Jun Zhu

Institute of Bioinformatics, Zhejiang University, China

Features of the Software
This software has several features: Handle complicated genetic models for agronomic traits, seed traits, and developmental traits; Analyze unbalanced data; Combine jackknifing techniques to test the significance of each genetic parameter; Some important references are listed in the result files. Models and formulas in this software package are given in Zhu (2001). Kernel for these models including Agronomy model, Animal model, Seed model, Sex model, Trial model, and QTL Data model was written by Jun Zhu,Link Map model was written by Jixiang Wu, Germplasm model was developed by Haiming Xu, Microarray model was developed by Yan Lu; The graphic user interface was developed by Guobo Chen.
System Requirements
Hardware: PC 586 or higher; 32MB RAM or more; at least 10 Mb free space on hard disk.
Operation System: Microsoft Windows 95, 98, Me, NT, 2000, XP, 2003.
Download and Installation
English versionQGA_En.zip
Chinese versionQGA_Cn.zip
Unzip the downloaded file, and run the .zip file.
 
How to run the program

Six steps to run an input file

1.Create an input file Regular text file editors, include the QGAStation can be used for preparing input files. But using Microsoft Excel, or other electronic table software can make it much easier to prepare and manage your input files. Each method employs different file formats. You could find data formats definition in the help document of each method, and we also provide some samples of input files under the Sample folder. Missing data is denoted by dot (".").

2.Open an existent files You could open an input file through main menu [File]>>[Open], or click [Open] icon on the toolbar to open a file including raw data.

3.Select analysis method and model An input file should be analyzed by a model using appropriate statistical methods. Select a model through menu [Method], which lists different methods collected in QGAStation, including Agronomy methods, Animal methods, Seed methods, Trial methods and Link Map method. Click one of selection in Method menu, a submenu  will pop out, which lists various models along with a certain statistical methods. Now, you could select a method and a model you want from the submenu.

4.Coefficient setting A Coefficient-setting Box will pop out when you have selected a certain model from [Method]. You could find the details about meaning of each coefficient in  help documents of every model selected.

5.Run After setting the coefficients, you could Run the input data with set coefficients through Run button at the bottom of Coefficient-setting Box, or exit the Coefficient-setting Box without running through click the Cancel button ,which also is at the right of the Run button.

6.View the result files The result files will be saved under the same direction of input file. Because all result files are text files, you could view the result files with any kind of text viewer, of course, electronic table software such as Microsoft excel is much better to view the result files .In every result file, data are separated by commas in every line.

Note: One file will be automatically created, named filename.cgb, which saves the filtered observation(s) containing missing data.

Methods presented in the software
Agronomy
Animal
Seed
Trial
Germplasm
Link
QTL Data
Microarray