mega
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mega [2008/05/20 14:25] – heidi | mega [2011/07/07 11:50] (current) – heidi | ||
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- | Version | + | Version |
MEGA is an integrated tool for conducting automatic and manual sequence alignment, inferring phylogenetic trees, mining web-based databases, estimating rates of molecular evolution, and testing evolutionary hypotheses. | MEGA is an integrated tool for conducting automatic and manual sequence alignment, inferring phylogenetic trees, mining web-based databases, estimating rates of molecular evolution, and testing evolutionary hypotheses. | ||
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===== Program information ===== | ===== Program information ===== | ||
- | * Windows | + | * Windows XP, Vista, 7 (with at least 64 MB of RAM, 20 MB of available hard disk space) |
* MEGA also can be run on other operating systems for which Windows emulators are available: | * MEGA also can be run on other operating systems for which Windows emulators are available: | ||
* Macintosh: Windows using VirtualPC | * Macintosh: Windows using VirtualPC | ||
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* there should be no spaces between the taxa name and group name | * there should be no spaces between the taxa name and group name | ||
- | * **Labelling Individual Sites:**¨ | + | * **Labelling Individual Sites:** |
* The individual sites in nucleotide or amino acid data can be labeled to construct non-contiguous sets of sites. | * The individual sites in nucleotide or amino acid data can be labeled to construct non-contiguous sets of sites. | ||
* Each site can be associated with only one label | * Each site can be associated with only one label | ||
- | * A label can be a letter or a | + | * A label can be a letter or a number. |
- | number. | + | |
=== example === | === example === | ||
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!Label +++__-+++-a-+++-L-+++-k-+++123+++-_-+++---+++; | !Label +++__-+++-a-+++-L-+++-k-+++123+++-_-+++---+++; | ||
</ | </ | ||
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=== example === | === example === | ||
< | < | ||
- | #one | + | #mega |
- | #two | + | !Title: Concatenated Files; |
- | #three | + | !Format DataType=Distance DataFormat=LowerLeft NTaxa=6; |
- | #four | + | |
- | #five | + | |
- | 1.0 2.0 3.0 4.0 | + | #Rodent |
- | 3.0 2.5 4.6 | + | #Primate |
- | 1.3 3.6 | + | # |
- | 4.2 | + | # |
+ | # | ||
+ | # | ||
+ | |||
+ | 0.514 | ||
+ | 0.535 0.436 | ||
+ | 0.530 0.388 0.418 | ||
+ | 0.521 0.353 0.417 0.345 | ||
+ | 0.500 0.331 0.402 0.327 0.349 | ||
</ | </ | ||
+ | |||
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===== How to cite ===== | ===== How to cite ===== | ||
- | * When referring to MEGA in the main text of your publication, | + | Citation for MEGA 5: |
- | Phylogenetic and molecular evolutionary analyses were conducted using MEGA version 4 (Tamura, Dudley, Nei, and Kumar 2007). | + | * Tamura K, Peterson D, Peterson N, Stecher G, Nei M, and Kumar S (2011) MEGA5: Molecular Evolutionary Genetics Analysis |
- | * When including a MEGA citation in the Literature Cited/ | + | |
- | Tamura K, Dudley J, Nei M & Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis | + | |
+ | \\ | ||
+ | Citation for MEGA 4: | ||
+ | * Tamura K, Dudley J, Nei M & Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Molecular Biology and Evolution 24: 1596-1599. |
mega.1211286347.txt.gz · Last modified: 2008/07/22 13:30 (external edit)