User:Boris/Temp/APB

Hardware

• High performance computing
• Cloud computing

Systems and Tools

• Unix
• Network Configuration
• Apache
• MySQL
• Tools for the bioinformatics lab
• GBrowse and LDAS

Programming

• IDE (Integrated Development Environment)
• Regular Expressions
• Screenscraping
• Perl
• BioPerl
• PHP
• Relational database principles
• BioPython
• Graphical output
• Autonomous agents

Algorithms on Sequences

• • Dynamic Programming
  • Multiple Sequence Alignment
  • Genome Assembly

Algorithms on Structures

• • Docking
  • Protein Structure Prediction

Algorithms on Trees

• • Computing with trees

Algorithms on Networks

• • Network metrics
    • Dijkstras Algorithm
    • Floyd Warshall Algorithm

Communication and collaboration

• MediaWiki
• HTML essentials
• HTML 5
• SADI Semantic Automated Discovery and Integration
• CGI

Statistics

• Pattern discovery
• Correlation
• Clustering methods
• Cluster metrics
• The Map Equation
• Machine learning
• R
  • R plotting
  • R programming
  • R EDA
  • R regression
  • R PCA
  • R Clustering
  • R Classification
  • R hypothesis testing
  • Bioconductor

Applications

• Data integration
• Text mining
• HMMER
• High-throughput sequencing
• Functional annotation
• Microarray analysis