Popgene 使用说明书

用来分析遗传多样性的数据

POPGENE VERSION 1.31

Microsoft Window-based Freeware for

Population Genetic Analysis

Quick User Guide

A joint Project Development by

Francis C. Yeh and Rong-cai Yang, University of Alberta

And

Tim Boyle, Centre for International Forestry Research

August 1999

用来分析遗传多样性的数据

New Feature in Current Version

For Windows 95, 08 and NT Users (32-bit version)

This version (1.31) has a new graphics interface that produces publication quality dendrograms.

POPGENE generates two dendrograms for each populations analysis, base on Nei’s regular and unbiased genetic distance measures. Immediately after each of these dendrograms in the output file, you will now see “File Name: dgram1.plt “ or “File Name: dgram2.plt “. These two files are stored in the same directory as your output file. They are the files you use for printing publication quality dendrogram.

Now, open your word-processing package such as Microsoft Word or Corel WordPerfect. Use the statements/commands “insert → picture → file from” to bring these files, “dgram1.plt” or “dgram2.plt” into your word processor.

For Windows 3.11 Users (16-bit version)

Users must first download and install the following file:

Then, follow the procedures detailed above for Windows 95, 98 and NT.

用来分析遗传多样性的数据

Installing POPGENE from diskette/CD

1. Start Microsoft Windows (Windows 3.11, Windows 95, 98 and NT).

2. Insert the POPGENE Disk into your floppy drive/CD Drive.

3. Run A: POPGEN16.EXE (for 16-bit operating environment under Windows 3.11) or A: POPGEN32 (for 16-bit operating environment under Windows 95, 98 and NT) where ‘A’ is the floppy drive number or CD drive number on your computer.

4. Follow the instruction on your screen.

5. Go to the directory where you installed POPGENE and double click the POPGENE icon to start the program.

Installing POPGENE that you downloaded from website

1. Start Microsoft® Window (Windows 3.11, Windows 95, 98 and NT).

2. Go to the directory where you stored your downloaded POPGENE.

3. Type or double click on the file you saved.

4. Follow the instructions on your computer screen.

5. Go to the directory where you have installed POPGENE and double click the POPGENE icon to start the program.

Uuinstall POPGENE ? 32- bit version

Start Microsoft® Windows and select "Start" menu, "Settings", then "Control Panel". Select "Add/Remove Programs" and double click on "Population Genetics Analysis ". Follow the instructions on your computer screen. 16- bit version

Start Microsoft® Windows and select PopGen16 folder. Double click on "Uninstall PopGen16". Follow the instructions on your computer screen.

用来分析遗传多样性的数据

Introduction

POPGENE is a user-friendly Microsoft® Window-based computer package for the analysis of genetic variation among and within natural populations using co-dominant and dominant markers and quantitative traits. This package provides the Windows graphical user interface that makes population genetics analysis more accessible for the casual computer user and more convenient for the experienced computer user. Simple menus and dialog box selections enable you to perform complex analysis and produce scientifically sound statistics, thereby assisting you to adequately analyze population genetic structure using the target markers/traits.

The current version (version 1.30) is designed specifically for the analysis of co-dominant and dominant markers using haploid and diploid data. It performs most types of data analysis encountered in population genetics and related fields. It can be used to compute summary statistics (e.g., allele frequency, gene persity, genetic distance, F-statistics, multilocus structure, etc.) for (1) single-locus, single populations; (2) single-locus, multiple populations; (3) multilocus, single populations and (4) multilocus, multiple populations.

Version 1.30 also includes the module for quantitative traits. However, we are not supporting it at this time because of the large RAM requirement when analyzing quantitative genetic data.

Hardware and Software Requirements

To be able to run POPGENE, your hardware and software must meet the following minimum requirements:

Hardware*: An IBM PC or compatible with an Intel 386 processor or higher CPU and

8 or more MB of random access memory (RAM). A mathematical coprocessor is required to achieve a reasonable computing speed.

Software: Windows 3.11 (16-bit version) or later version, Windows 95, 98 or NT

(32-bit version)

APPLE computer users can run POPGENE on PowerPc or the new G3, but must first install a software such as "Virtual PC" or “Soft Windows”. POPGENE runs effortlessly under "Virtual PC" and “Soft Windows”.

* Neutrality tests and all multilocus genetic estimates are computationally demanding. We strongly recommend running POPGENE on a Pentium-based PC with 16 or more MB of RAM.

用来分析遗传多样性的数据

Overview of POPGENE Windows

This package is written in Borland® C++ 4.51, a powerful professional tool for creating Windows applications using the C and C++ languages.

The POPGENE Windows computing environment consists of two types of windows: Data display windows and Dialog boxes.

POPGENE is menu driven. Most features are accessed by making selections from the menus. The main menu bar contains eight menus:

File. Use the File menu to create a new data file or open an existing file.

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