Computational Molecular Biology

Blocks, Profiles & Hidden Markov Models

Doug Brutlag

May 8, 2008

• Homework Assignment 6
• Slides (HTML)
• Slides (PDF)
• Literature References
• Internet Resources
  • Blocks Server
  • Block Maker
  • Profile Scan
  • pFAM database at Janelia Farm (Eddy)
  • pFAM database at Sanger Center (UK)
  • SAM: Sequence Alignment and Modeling System at UCSC
  • HMMER -- Hidden Markov model software at Janelia Farm (Eddy)
  • HMM Tutorial on Web
  • Rabiner's HMM Tutorial (pdf)
  • ISMB HMM Tutorial from 1999
• CMGM Resources
  • Decypher
  • SeqWeb on PMGM
• Back to Biochem 218 Syllabus