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Sequence assembly in MacVector. 
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Joined: Thu Dec 07, 2006 6:20 pm
Posts: 173
Location: Cambridge, UK
Post Sequence assembly in MacVector.
Many users contact us asking about using MacVector for sequence assembly. The Assembler plugin was first introduced in MacVector 9. However, it also appears that not many users know about the Sequence Confirmation. This was first added to MacVector in version 8. Sequence Confirmation is built right into every MacVector and allows you to take trace files and assemble them against a template sequence. This is ideal if you are doing small scale sequencing projects, especially resequencing. For example checking an in situ mutagenesis experiment, a construct you've just made, or confirming the sequence of a cloned PCR fragment. It's also an excellent tool for SNP analysis, with some special tools to allow you to easily spot mutations from your original template sequence.

For full scale sequencing projects where you do not know the sequence of what you are sequencing you'll need MacVector and a plugin called Assembler. This is a full contig assembly application that uses the Phred/Phrap and Cross Match algorithms to assembles traces into contigs. It shows full quality scores of the reads and the aligned contigs. This trial version of MacVector also includes the Assembler plugin.

http://www.macvector.com/Products/macvectorassembler.html

There are also two downloadable PDF tutorials on our website that describe these two sequencing analysis functions in MacVector:

http://www.macvector.com/Resources/Sequence%20Confirmation%20Tutor.pdf
http://www.macvector.com/Resources/Contig%20Assembly%20Tutorial.pdf

As ever drop us a line at support@macvector.com if you have any questions.

Cheers
Chris


Thu Nov 15, 2007 11:02 pm
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