Multiple Sequence Alignment with JalView

Monday 9th - Tuesday 10th May 2011

EMBL Heidelberg

Day 1 (Monday 9th May), Aidan Budd

• What makes sequences more/less difficult to align well
• Introduction to automatic MSA-building tools
• Example workflow for building an MSA
• Commonly-observed patterns in protein MSAs
• Opportunity for participants to analyse their own sequences

• Exercises
• Presentation

Day 2 (Tuesday 10th May) Geoff Barton and Jim Procter

• Introduction to multiple sequence alignment with JalView
• Introduction to JalView
• Alignment, annotation and analysis
• Advanced topics and/or Jalview Clinic

Software Guides

• CLUSTALX
• Dendroscope
• Jalview
• MESQUITE
• NJplot
• PyMOL

References

Links to software and webservers