Hello everyone, I am Deng Fei. Here I will introduce how to use Haploview for haplotype analysis.
The plan is divided into three articles:
- Part 1: Haploview Haplotype Tutorial 1 – Software Installation
- Part Two: Haploview Haplotype Tutorial 2-Analysis Tutorial
- Part Three: Haploview Haplotype Tutorial 3 – Interpretation of Results
Today is the first one.
Here's what Haploview did:
The following is the result of LDblockShow:
the results of the two are consistent.
Because Haploview is a GUI interface, it can be clicked with the mouse, so it is simpler:
1. Software download
Official website: https://www.broadinstitute.org/haploview/downloads#JAR
Windows system:
Linux system:
2. Configure java environment
https://www.java.com/zh-CN/download/
After downloading and installing, run java on the terminal, and the help document will appear, indicating that the configuration is successful.
2.1 windows system
Open the cmd terminal, type java, and the following interface appears, indicating that the configuration is successful.
2.2 Linux system
Open the terminal, type java, and the following interface appears, indicating that the configuration is successful.
3. windows installation
After installation, open the HaploView software:
Open the software:
4. Linux installation
In the terminal, type the command:
java -jar Haploview.jar
The interface appears:
The above is the installation of the software.
The next article introduces the practical method of data analysis.
The next article introduces how to interpret the Haploview results and how to fine-tune the results.
Welcome to continue to pay attention.