CorGAT

CorGAT performs functional annotation of SARS-CoV-2 genomes to identify functionally relevant genomic sites and support analysis of viral variation and evolution.

Key Features:

• Comprehensive annotation: Integrates multiple state-of-the-art methodologies to provide detailed functional annotation of SARS-CoV-2 genomes and highlight functionally relevant sites.
• Alignment and variant analysis: Uses Perl scripts to perform alignment of SARS-CoV-2 genomes and annotate genetic variants.
• Resource integration: Harnesses multiple currently available resources to produce exhaustive annotations of genomic features.
• Scalability: Designed to operate on large collections of SARS-CoV-2 sequences, including datasets exceeding 200,000 genomes.

Scientific Applications:

• Variant impact assessment: Enables identification and interpretation of the potential impact of genetic variants on viral function.
• Evolutionary analysis: Facilitates tracing of evolutionary patterns and mutation dynamics within the SARS-CoV-2 genome.
• Genomic surveillance support: Provides annotations that inform surveillance efforts to monitor and characterize emerging SARS-CoV-2 strains.

Methodology:

Perl scripts perform genome alignments and variant annotation, the system integrates multiple annotation resources and state-of-the-art methodologies, and annotation outputs are compared with other methods.