Seq Workshop/2009: Difference between revisions
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= Free sequence analysis packages = | = Free sequence analysis packages = | ||
* Mega [http://www.megasoftware.net/] | * Mega [http://www.megasoftware.net/] | ||
* Sewer [http://www.bioinformatics.org/sewer/] | |||
</div> | </div> | ||
Revision as of 14:36, 27 January 2009
Course overview
Recent updates to the course
Free software that will allow you to simultaneously assemble reads and view chromatograms:
Note: All of these require a moderate level of comfort working in a Unix or Linux environment
- The Staden Package: [1]
- Phred/Phrap/Consed: [2]
- Hawkeye/AMOS: [3]
- Vector NIT: as of December, 2008, Vector NIT is no longer free
- Mesquite: is free, but the module that allows you to do this (Chromaseq) is not yet avaialable to the public
Not free, but cheaper than Sequencher, and offer a free trial
CodonCode Aligner [6]
- runs on Mac OSX and Windows, this is a replacement for the free TraceViewer that these guys used to offer]
- SUPER easy to use
DNABaser [7]
- runs natively on Windows or on a Mac if you install virtual Windows
- looks easy to use, but I haven't installed it
- they also offer some free file format converters which can come in handy when using the free packages
Geneious [8]
- runs on Mac OSX and Windows
- SUPER easy to use
