Web tools

  • ViroBLAST  A BLAST web server that allows users to search multiple sequence databases including public and local databases.
  • DIVER  A web interface to analyze sequence divergence and diversity.
  • InSites  A web interface to detect informative sites in a set of aligned nucleotide or amino acid sequences.
  • EpitopeDB  A web database to store, retrieve and analyze HIV immunology data (ELISpot, HLA, etc.).
  • PrimerDB  A web database to store, search and retrieve lab used HIV primers.
  • LiteraTracker  A web service to track literatures.
  • COTree  A web interface that re-roots a newick tree at the least squares point (COT).
  • rdvg  A test for the detection of latent reservoirs.
  • idvg  A test for the detection of continued viral replication under antiviral therapies.
  • DistParser  A tool to pull branch lengths from newick tree and returns divergence and diversity.
  • JitterCalc  An Excel spreadsheet that jitters points with identical (x, y) values.
  • PAUP* Diversity Matrix Formatter  A tool to reformat diagonal distance matrices into columnar output

Perl scripts