Viral Genomics Analysis Apps

This site provides access to tools developed for the analysis of inter- and intra-host viral genetic diversity. 

Please join our users google group to obtain feedback from other users of these tools, report a bug, and recieve updates on new versions.

Tools
ATHLATES: HLA typing from exome capture sequencing

AV454: de novo consensus assembler designed for reads derived from diverse viral populations

PriSM: degenerate primer design tool optimized for genome sequencing applications

RC454: read alignment and error correction tool for cleaning 454 reads of process errors

V-Phaser & V-Profiler: variant calling and visualization tools to identify biological mutations in diverse populations

V-Phaser 2: improved version of the V-Phaser variant caller the works on ultra-deep Illumina paired end data

VICUNA: efficient intra-host de novo assembler for ultra-deep sequence data

V-FAT: automated finishing, annotation, and QA tool for viral assemblies