Computer Analysis of Sequence Data pp 9-23 | Cite as
GCG: Fragment Assembly Programs
Protocol
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Abstract
The Fragment Assembly System is a series of related programs that help you assemble overlapping fragment sequences as obtained at the lab bench. Specifically, the programs resemble a small databas system that helps you to achieve six major tasks:
- 1.
Entering and storage of sequences in a project database (method 1).
- 2.
Recognition of overlaps (method 2).
- 3.
Manipulation of aligned fragments (this step and all following: method 3)
- 4.
Generation and comparison of consensus sequences as determined from aligned fragments.
- 5.
Display and archiving of aligned sequences.
- 6.
Determination of the consensus sequence.
Keywords
Command Line Single Fragment Screen Mode UNIX System Strand Orientation
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.
References
- 1.Staden, R. (1980) A new computer method for the storage manipulation of DNA gel reading data. Nucl. Acids Res. 11, 3673–3694.CrossRefGoogle Scholar
- 2.Devereux, J., Haeberli, P., and Smithies, O. (1984) A comprehensive set of sequence analysis programs for the VAX. Nucl. Acids Res. 12, 387–395.PubMedCrossRefGoogle Scholar
Copyright information
© Humana Press Inc., Totowa, NJ 1994