Spin

• Organisation of the Spin Manual
• Introduction
  • Summary of the Spin Single Sequence Functions
  • Summary of the Spin Comparison Functions
  • Introduction to the Spin User Interface
    • Introduction to the Spin Plot
    • Introduction to the Spin Sequence Display
    • Introduction to the Spin Sequence Comparison Plot
    • Introduction to the Spin Sequence Comparison Display
  • Spin Menus
    • Spin File Menu
    • Spin View Menu
    • Spin Options Menu
    • Spin Sequences Menu
    • Spin Statistics Menu
    • Spin Translation Menu
    • Spin Search Menu
    • Spin Comparison Menu
    • Spin Emboss Menu
• Spin's Analytical Functions
  • Count Sequence Composition
  • Count Dinucleotide Frequencies
  • Plot base composition
  • Calculate codon usage
  • Set genetic code
  • Translation - general
  • Find open reading frames
  • Restriction enzyme search
    • Selecting Enzymes
    • Examining the Plot
    • Reconfiguring the Plot
    • Printing the sites
  • Subsequence search
  • Motif search
  • Gene finding
    • Start codon search
    • Stop codon search
    • Codon usage method
    • Positional base preferences
    • Author test
    • Uneven positional base preferences
    • Splice site search
    • tRNA search
• Spin Comparison Functions
  • Finding Similar Spans
  • Finding Matching Words
  • Finding the Best Diagonals
  • Aligning Sequences Globally
  • Aligning Sequences Locally
• Controlling and Managing Results
  • Probabilities and expected numbers of matches
  • Changing the maximum number of matches
  • Changing the default number of matches
  • Hide duplicate matches
  • Changing the score matrix
  • Set protein alignment symbols
• The Spin User Interface
  • SPIN Sequence Plot
    • Cursors
    • Crosshairs
    • Zoom
    • Drag and drop
  • Sequence display
    • Search
    • Save
  • SPIN Sequence Comparison Plot
    • Cursors
    • Crosshairs
    • Zoom
    • Drag and drop
  • Sequence Comparison Display
• Controlling and Managing Results
  • Result manager
    • Information
    • List
    • Configure
    • Hide
    • Reveal
    • Remove
• Reading and Managing Sequences
  • Use of feature tables in spin
  • Reading in sequences
    • Simple search
    • Extracting a sequence from a personal archive file
  • Sequence manager
    • Change the active sequence
    • Set the range
    • Copy Sequence
    • Sequence type
    • Complement sequence
    • Interconvert t and u
    • Translate sequence
    • Scramble sequence
    • Rotate sequence
    • Save sequence
    • Delete sequence
  • Selecting a sequence
  • Index

This document was generated on 5 July 2006 using the texi2html translator version 1.39 (with local modifications)