We will be holding a one-day Jalview hands-on workshop on Monday 15th December 2014 at University College London, hosted by the Orengo Group.
The training session slides can be accessed: http://www.jalview.org/tutorial/training-materials/2014/London/Dec/
Location and Registration
The course will be held in IT Suite B29 in Foster Court (click for map), which is in University College London's Bloomsbury Campus.
Registration costs £15 for students and £25 for everyone else. This covers refreshments, lunch, and course materials.
Sign up for the workshop at the Dundee eShop. The registration deadline has been extended to 4th December 2014
Who should attend?
This hands-on tutorial course is for anyone who works with biological sequences, it involves of a mixture of talks and hands-on exercises.
Schedule for the Day:
9am Overview of the day
9.15-10.30 Session 1: Introduction to Jalview
Starting the application, importing alignments
Alignment editing, colouring, and creating figures
10.30-11.00 Morning Coffee break
11.00-12.30 Session 2: Alignment and alignment analysis
Creating sequence alignments, Importing and calculating trees
Tree based alignment analysis, Viewing sequence annotation
12.30-1.30 Lunch (held in Roberts Foyer G02 (click for map))
1.30-3pm Session 3: Annotating sequences and alignments
Protein secondary structure and protein disorder prediction
Working with alignment annotation
3pm-3.30 Afternoon Coffee Break
3.30-4.45 Session 4: Working with molecular structures
Viewing 3D structures and superposing them using the alignment
Viewing RNA secondary structures in 2D and 3D
4.45-5pm Wrap up - what we didn't cover today
The morning session covers introductory material suitable for anyone not familiar with working with sequences and sequence alignments, or who has never edited or published alignments with Jalview. It also provides an introduction to tree based alignment analysis, which is one of the fundamental ways in which biological function and structural information can be extracted from sequence alignments.
The afternoon session provides an opportunity to explore Jalview's web based functions, including protein secondary structure and disordered region prediction. The final session focuses on exploring 2D and 3D molecular structure information in the context of multiple sequence alignments.
The material is based on the 'Introduction to Jalview' manual which is available from http://www.jalview.org/about/documentation
Workshop poster avaialble here.