[ Program Manual | User's Guide | Data Files | Databases ]
GelDisassemble breaks up the contigs in a fragment assembly project into single fragments.
See the Fragment Assembly System (FAS) Introduction for an overview of working with the programs within the FAS to assemble sequences in a sequencing project.
GelDisassemble breaks all assembled contigs in the current fragment assembly project and rebuilds a database consisting of the unjoined, working fragments. All edits made to the fragments in GelAssemble are preserved in the unjoined fragments.
You can rebuild the database from the original gel readings, rather than the working fragments, using -ARChive. This recreates the project database exactly as if you had just entered all of the fragments. Any modifications you have made to the sequences in GelMerge and GelAssemble are lost.
Here is a session with GelDisassemble used to disassemble the project "myproject." This project was created in the example sessions of GelStart, GelEnter, and GelMerge.
% geldisassemble Are you sure you want to disassemble your project (* No *) ? Yes 1) Emptying "relation" directory.... 2) Emptying "consensus directory.... 3) Copying "working" to "consensus".... 4) Creating "relation".... Gel Project Disassembled %
GelStart begins a fragment assembly session by creating a new fragment assembly project or by identifying an existing project. GelEnter adds fragment sequences to a fragment assembly project. It accepts sequence data from your terminal keyboard, a digitizer, or existing sequence files. GelMerge aligns the sequences in a fragment assembly project into assemblies called contigs. You can view and edit these assemblies in GelAssemble. GelAssemble is a multiple sequence editor for viewing and editing contigs assembled by GelMerge. GelView displays the structure of the contigs in a fragment assembly project. GelDisassemble breaks up the contigs in a fragment assembly project into single fragments.
All parameters for this program may be added to the command line. Use -CHEck to view the summary below and to specify parameters before the program executes. In the summary below, the capitalized letters in the parameter names are the letters that you must type in order to use the parameter. Square brackets ([ and ]) enclose parameter values that are optional. For more information, see "Using Program Parameters" in Chapter 3, Using Programs in the User's Guide.
Minimal Syntax: % geldisassemble -Default Prompted Parameters: None Local Data Files: None Optional Parameters: -ARChive rebuilds database from the original gel readings -NOMONitor suppresses screen monitor of program progress
None.
You can set the parameters listed below from the command line. For more information, see "Using Program Parameters" in Chapter 3, Using Programs in the User's Guide.
rebuilds the database from original gel readings rather than from the working fragments.
This program normally monitors its progress on your screen. However, when you use -Default to suppress all program interaction, you also suppress the monitor. You can turn it back on with this parameter. If you are running the program in batch, the monitor will appear in the log file.
[ Program Manual | User's Guide | Data Files | Databases ]
Technical Support: support-us@accelrys.com
or support-eu@accelrys.com
Copyright (c) 1982-2002 Accelrys Inc. A subsidiary of Pharmacopeia, Inc. All rights reserved.
Licenses and Trademarks Wisconsin Package is a trademark and GCG and the GCG logo are registered trademarks of Accelrys Inc.
All other product names mentioned in this documentation may be trademarks, and if so, are trademarks or registered trademarks of their respective holders and are used in this documentation for identification purposes only.