jpHMM at GOBICS -- a web server to detect genomic recombinations in HIV-1
What you can do:
Perform subtyping of HIV-1 sequences.
Highlights:
- jpHMM is a web server for subtyping and localization of phylogenetic breakpoints in HIV-1 based on a jumping profile Hidden Markov Model (jpHMM).
- The input data is a partial or complete genome sequence from HIV-1; the tool assigns regions of the input sequence to known subtypes of HIV-1 and predicts phylogenetic breakpoints.
- In the recent update, the output of jpHMM was extended to include such information in terms of 'uncertainty' regions in the recombination prediction and an interval estimate of the breakpoint.
- Both types of information are computed based on the posterior probabilities of the subtypes at each query sequence position.
- This was done to improve the reliability of the predictions
Keywords:
- HIV-1 subtyping tool
- HIV-1 subtypes
- HIV-1 recombinant breakpoint position prediction tool
- HIV genome analysis
- AIDS
- virus genome analysis tool
Literature & Tutorials:
This record last updated: 08-11-2009