PANDAseq is a bioinformatics tool that aligns paired-ends of Illumina sequences [1]. In this article, we are going to install PANDAseq on Ubuntu.
Preparing system
Open a terminal by pressing Ctrl+Alt+T. Update and upgrade your system using the following commands:
$ sudo apt-get update
$ sudo apt-get upgrade
Installing Pre-requisites
You need to install some packages before installing PANDAseq. Paste the following command in the terminal:
$ sudo apt-get install -y build-essential libtool automake zlib1g-dev libbz2-dev pkg-config
Downloading PANDAseq
Change to the directory where you want to download the software. Let’s say, Downloads. Download the PANDAseq from here or use the following command:
$ cd Downloads/
$ wget https://github.com/neufeld/pandaseq/archive/master.zip
Installing PANDAseq
Unzip the downloaded file using the following command:
$ unzip master.zip
Change to the source directory of PANDAseq,
$ cd pandaseq-master/
Now, install PANDAseq using the following command.
$ ./autogen.sh && ./configure && make && sudo make install
It will take a few minutes to finish. After that, you will be able to run PANDAseq on your system successfully!
References
- Masella, A.P., Bartram, A.K., Truszkowski, J.M. et al. (2012). PANDAseq: paired-end assembler for illumina sequences. BMC Bioinformatics 13, 31.
