Contents
Jalview Documentation
What's new
Graduated Feature Colours
Sort by Features
Envision2 Service
Release History
Editing Alignments
Cursor Mode
Key Strokes
Input / Output
Making Figures
Hidden Regions
Multiple Views
Viewing Trees
Fetching Sequences
Sequence Features
Sequence Feature Settings
Sequence Features File
Feature Colourschemes
User Defined Sequence Features
Editing Sequence Features
DAS Feature Retrieval
DAS Feature Settings
Web Services
Sequence Alignment
Clustal Alignment
Muscle Alignment
MAFFT Alignment
Multiple Alignment Subjobs
Secondary Structure Prediction
Sequence Retrieval
Database Reference Retrieval
DAS Feature Retrieval
Colour Schemes
Background Dependent Text Colour
ClustalX
Zappo
Taylor
Hydrophobicity
Helix propensity
Strand propensity
Turn propensity
Buried index
Nucleotide colours
Blosum62
by Percentage Identity
User Defined
Above Percentage Identity
By conservation
By Annotation
Calculations
Sorting alignments
Calculating trees
Principal Component Analysis
Tree/PCA Input Data
Pairwise Alignments
Remove Redundancy
Alignment Annotations
Conservation
Quality
Consensus
Annotations File Format
Viewing PDB Files
Jmol Viewer
Simple PDB Viewer
VAMSAS Data Exchange
Window Menus
Desktop Window
Alignment Window
File Menu
Edit Menu
Select Menu
View Menu
Format Menu
Colour Menu
Calculation Menu
Web Service Menu
Annotation Menus
Popup Menu
Preferences
Memory Settings
JNLP with extra memory parameters
Command Line
Command Line Arguments
Groovy Shell
Privacy
Useful information
Amino Acid Table
Amino Acid Properties
The Genetic Code