COVID-Profiler

COVID-Profiler analyzes SARS-CoV-2 sequencing data to perform quality control, mutation annotation, and phylogenetic analysis for tracking viral evolution and supporting diagnostics, serological assay development, and vaccine research.

Key Features:

• Data Input Flexibility: Accepts raw and assembled sequencing data for analysis.
• Quality Control: Provides visualization of raw alignments for quality assessment.
• Mutation Annotation: Annotates mutations in SARS-CoV-2 sequences and reports changes relevant to transmissibility and vaccine efficacy.
• Phylogenetic Analysis: Performs phylogenetic analysis to infer lineages and transmission patterns.
• Adaptability for Other Pathogens: Pipeline can be adapted for analysis of other emerging or re-emerging pathogens.

Scientific Applications:

• Epidemiological Surveillance: Supports epidemiological studies by enabling comparative analysis of viral sequences across samples, regions, and populations.
• Mutation Monitoring for Public Health: Enables monitoring of SARS-CoV-2 mutations to assess impacts on diagnostics, serological assays, and vaccine strategies.
• Transmission and Evolutionary Analysis: Facilitates lineage tracking and phylogenetic inference to elucidate transmission dynamics and evolutionary relationships.

Methodology:

The pipeline processes input sequencing data, performs quality control via visualization of raw alignments, annotates mutations, and conducts phylogenetic analyses.