• Simpleaffy
• GeneChip MOE430A Sequence and Annotation Files
• Affy GeneChip MOE430A: Probe Sequences in a ProbeSet

R (statistical package)

• R FAQ
• R Site Search  (or search Google with first token "filetype:R")
• R Wiki
• Kickstarting R
• simpleR -- Using R for Introductory Statistics
• R for Beginners
• The "R" Manuals
• "S" Poetry (still useful for "R")
• R mailing lists archive
• R News
• R TclTk Examples
• R Bug Tracking System
• Archives:  R-Help and R-Devel

• Library of Procedures for Analysis of DNA Sequences
• limmaGUI:  A Graphical User Interface for Linear Modelling of Microarray Data
• Analyses of Phylogenetics and Evolution (APE)
• R for Categorical Data Analysis
  
• Enseignements de Statistique en Biologie
  
• R for MatLab Users

S

• S News Archive

Excel

• Why spreadsheets can be problems:  Spreadsheet Addiction
  Executive Summary: "Don't do statistics in spreadsheets, especially Excel."

• Adding NCBI links to GI numbers in Excel
• Computaton of Mean and Standard Deviation Using Grouped Data
• Printing bands of variable size in Excel
• VB ColorTest function to determine background color of Excel cell
• Histograms Using the Frequency Function
• Using Error Bars
• Floating-Point Arithmetic May Give Inaccurate Results
• How to correct rounding errors in floating-point arithmetic
• Excel VBA links from Mathtools

PowerPoint

• Edward R Tufte's The Cognitive Style of PowerPoint
• More about The Cognitive Style of PowerPoint
• Five Experts Dispute Edward Tufte on PowerPoint
• BBC Radio, Oct 18, 2004:  Microsoft PowerPoint and the Decline of Civilization
• Ruth Marcus: PowerPoint's insidious influence

Data Visualization

• How to Construct Bad Charts and Graphs

Graph software

• GraphML (direct, undirected graphs; hypergraphs; hierarchical graphs, ...)