SIFT is a bioinformatics tool for predicting missense effects of non-synonymous/missense variations in sequences [1]. SIFT identifies naturally occurring nonsynonymous polymorphisms as well as laboratory-induced missense mutations. In this article, we will install SIFT 6.2.1 for missense variants prediction on Ubuntu.
Getting started
Let’s update and upgrade the system first.
Open the terminal (Ctrl+T) and type the following commands:
$ sudo apt-get update
$ sudo apt-get upgrade
Downloading SIFT 6.2.1
Change to the directory where you wish to download the software. You can either download it from here or use the following command:
$ cd Downloads/
$ wget https://s3.amazonaws.com/sift-public/nsSNV/sift6.2.1.tar.gz
Installing SIFT
Extract the archived file and then install it.
$ tar xvzf sift6.2.1.tar.gz
Change to the sift directory.
$ cd sift6.2.1/
Move inside the blimps directory present in sift and make.
$ cd blimps/
$ make clean
$ make all
$ cd ../
Now move inside the src directory and compile.
$ cd src/
$ ./compile.csh
It could take some time to finish depending upon your system configuration. That finishes your installation.
References
- Vaser, R., Adusumalli, S., Leng, S. N., Sikic, M., & Ng, P. C. (2016). SIFT missense predictions for genomes. Nature protocols, 11(1), 1.
