SVA is designed for two specific aims:(1) To annotate the biological functions of the identified genetic variants, visualize and organize them;
(2) To help find the genetic variants associated with or responsible for the biological traits or medical outcomes of interest.
a program designed to run on a LINUX platform, with a graphical user interface (GUI), meaning that the main functions of this program can be done with clicking buttons.
a program specifically designed for analyzing genetic variants that have already been called (identified) from a whole genome sequencing study. So do not try to find a function here to align short reads and call variants - SVA is not designed for those purposes - many other software tools, for example, BWA and SAMTOOLS , were developed for those purposes.
How it works