See: Description
Interface | Description |
---|---|
ConfigStrucAligParams | |
MatrixListener | |
UserArgumentProcessor |
Class | Description |
---|---|
AbstractUserArgumentProcessor | |
CECalculator |
This is based on the original Combinatorial Extension (CE) source code from 2003 or 2004 (CE version 2.3),
as has been originally developed by I.
|
CeCalculatorEnhanced |
This is based on the original Combinatorial Extension (CE) source code from 2003 or 2004 (CE version 2.3),
as has been originally developed by I.
|
CeCPMain |
A wrapper for
CeMain which sets default parameters to be appropriate for finding
circular permutations. |
CeCPMain.CPRange |
Tiny wrapper for the disallowed regions of an alignment.
|
CeCPUserArgumentProcessor | |
CeMain |
The main class of the Java implementation of the Combinatorial Extension Algorithm (CE),
as has been originally developed by I.
|
CeParameters |
Contains the parameters that can be sent to CE
|
CeSideChainMain | |
CeSideChainUserArgumentProcessor | |
CeUserArgumentProcessor |
process the arguments from command line
|
GuiWrapper |
A class to wrap some of the strucutre.gui classes using Reflection
|
OptimalCECPMain |
A wrapper for
CeMain which sets default parameters to be appropriate for finding
circular permutations. |
OptimalCECPParameters |
Contains the parameters that can be sent to CE
|
StartupParameters |
a simple bean that contains the parameters that can get set at startup
|
Shindyalov IN, Bourne PE (1998) Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. Protein Eng 11: 739-747see also:
Andreas Prlic; Spencer Bliven; Peter W. Rose; Wolfgang F. Bluhm; Chris Bizon; Adam Godzik; Philip E. Bourne (2010) Pre-calculated protein structure alignments at the RCSB PDB website Bioinformatics 26: 2983-2985