Rationale

• Computer programming is necessary for creative genomic analysis, a major focus of this course
• It's necessary to make significant progress in the upcoming research project
• It's necessary to serious bioinformatics of any sort
• Very few starting from scratch could make much progress in one semester in a research project using a conventional programming languages (e.g. Java)

BioBIKE Portal

BioBIKE log template

• Use it to log each interaction you have with BioBIKE
• It is NOT a way of keeping track of your time
• It will provide the developers of BioBIKE with the benefit of your experience -- what difficulties you encountered and what went right

Readings, Tours, and Investigations
    Article: BioBIKE: A Web-based, programmable, integrated biological knowledge base
                A brief description of how BioBIKE works
                (click Print PDF for a large file or Screen PDF for a smaller file)
    Primer: VPL user interface - In any BioBIKE instance, under HELP (red button), VPL Tutorial
    Primer: Basic Syntax (A.1. and A.2.) - In any BioBIKE instance, under HELP (red button), General Help
    Investigation: What is a Gene?

Problem Sets
    Exercises in Basic Syntax
    Problem Set: Introduction to BioBIKE
    Problem Set 2: Molecular Investigations

To Hand In
    6 Feb, end of day: Problem Set 2
    Periodically: BioBIKE log