Main.SoftwareTools History

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February 03, 2012, at 10:08 AM by 12.35.54.5 -
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Other lists

  1. http://molbiol-tools.ca/molecular_biology_freeware.htm
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February 01, 2012, at 04:00 PM by 12.13.176.132 -
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evolution games

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  • evolution games

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  1. Prichard lab
  2. Stephen lab
  3. Donelly lab

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February 01, 2012, at 12:16 PM by 12.13.176.132 -
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  1. http://przeworski.uchicago.edu/software.html
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February 01, 2012, at 12:11 PM by 12.13.176.132 -
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Population genetics

  1. http://www.sendou.soken.ac.jp/esb/innan/InnanLab/software.html

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October 17, 2011, at 03:41 PM by 35.14.218.44 -
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Simulation tools for teaching evolution

  • boxcar2d
  • simulate species evolution
  • Avida-ED

evolution games

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March 30, 2011, at 11:04 AM by 24.45.89.98 -
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Standalone tools

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Standalone tools for teaching and research

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  1. Cytoscape for networks
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  1. Cytoscape for networks
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March 30, 2011, at 11:03 AM by 24.45.89.98 -
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  1. Dynetica network simulation Java
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January 11, 2011, at 09:51 PM by 24.99.32.85 -
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  1. http://www.is.titech.ac.jp/~shimo/prog/consel/index.html CONSEL, tree selection

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  1. CONSEL, tree selection

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January 11, 2011, at 09:51 PM by 24.99.32.85 -
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Phylogeny

  1. http://www.is.titech.ac.jp/~shimo/prog/consel/index.html CONSEL, tree selection

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January 11, 2011, at 09:09 PM by 24.99.32.85 -
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  1. List by Paul Lewis
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January 11, 2011, at 08:32 PM by 24.99.32.85 -
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Standalone tools for teaching

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Standalone tools

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Other popular educational tools

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Other popular computing software

  1. Software, molecularevolution.org
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April 23, 2010, at 10:47 AM by 12.13.176.132 -
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  1. Gene Boy

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November 10, 2009, at 09:34 AM by 12.13.176.132 -
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  1. Gene network central
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May 19, 2009, at 01:28 AM by 76.123.112.152 -
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  1. SCIRun
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  1. SCIRun for modeling and visualization.
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May 19, 2009, at 01:20 AM by 76.123.112.152 -
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  1. SCIRun
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May 13, 2009, at 03:07 PM by 192.203.127.3 -
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  1. SAGE an open-source math tool (equivalent to Maple)
  2. scilab
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  1. SAGE an open-source equivalent of Maple
  2. scilab an open-source equivalent of matlab
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May 13, 2009, at 03:06 PM by 192.203.127.3 -
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  1. scilab
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May 13, 2009, at 10:54 AM by 192.203.127.3 -
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Other popular educational tools, but I (HQ) am not familiar with.

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Other popular educational tools

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  1. SAGE an open-source math tool
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  1. SAGE an open-source math tool (equivalent to Maple)
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May 13, 2009, at 10:53 AM by 192.203.127.3 -
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  1. SAGE an open-source math tool
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May 12, 2009, at 05:00 PM by 192.203.127.3 -
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  1. FirstGlance for protein structure

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May 10, 2009, at 03:12 PM by 76.123.112.152 -
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May 10, 2009, at 03:11 PM by 76.123.112.152 -
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  1. Online biology workbench
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  1. NEURON for empirically-based simulations of neurons and networks of neurons
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  1. NEURON for empirically-based simulations of neurons and networks of neurons
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May 10, 2009, at 03:05 PM by 76.123.112.152 -
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May 10, 2009, at 03:05 PM by 76.123.112.152 -
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  1. NEURON for empirically-based simulations of neurons and networks of neurons
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May 06, 2009, at 10:05 PM by 75.143.68.139 -
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  1. CN3D for protein structure.
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May 06, 2009, at 09:54 PM by 75.143.68.139 -
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Other popular educational tools (but HQ is not familiar with)

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Other popular educational tools, but I (HQ) am not familiar with.

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May 06, 2009, at 09:53 PM by 75.143.68.139 -
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Other popular educational tools (but I am not familiar with)

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Other popular educational tools (but HQ is not familiar with)

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May 06, 2009, at 09:43 PM by 75.143.68.139 -
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Other popular educational tools (but I am not familiar with)

  1. CaseIT a computer simulation tool that performs common laboratory procedures on any DNA or protein sequence.
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  1. for networks

Other popular educational tools (but I am not familiar with)

  1. CaseIT a computer simulation tool that performs common laboratory procedures on any DNA or protein sequence.
  2. WEKA, machine learning and data mining.
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  1. Cytoscape for networks
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  1. WEKA, machine learning and data mining.

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May 06, 2009, at 09:42 PM by 75.143.68.139 -
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Other popular tools (but I am not familiar with)

  1. WEKA, machine learning and data mining
  2. VMD for protein structure
  3. Utopia visualization
  4. DAVID Bioinformatics Resources at National Institute of Allergy and Infectious Diseases (NIAID), NIH

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Other popular educational tools (but I am not familiar with)

  1. CaseIT a computer simulation tool that performs common laboratory procedures on any DNA or protein sequence.
  2. WEKA, machine learning and data mining.
  3. VMD for protein structure.
  4. CHIMERA for protein structure.
  5. Utopia visualization.
  6. DAVID Bioinformatics Resources at National Institute of Allergy and Infectious Diseases (NIAID), NIH.

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May 06, 2009, at 09:38 PM by 75.143.68.139 -
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  1. Utopia
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  1. WEKA, machine learning and data mining
  2. VMD for protein structure
  3. Utopia visualization
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May 06, 2009, at 09:34 PM by 75.143.68.139 -
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  1. DAVID Bioinformatics Resources at

National Institute of Allergy and Infectious Diseases (NIAID), NIH

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  1. DAVID Bioinformatics Resources at National Institute of Allergy and Infectious Diseases (NIAID), NIH

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May 06, 2009, at 09:34 PM by 75.143.68.139 -
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Tools that I am not familiar with, but seem to be the choice of others

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Other popular tools (but I am not familiar with)

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May 06, 2009, at 09:33 PM by 75.143.68.139 -
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  1. for networks

Tools that I am not familiar with, but seem to be the choice of others

  1. Utopia
  2. DAVID Bioinformatics Resources at

National Institute of Allergy and Infectious Diseases (NIAID), NIH

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May 06, 2009, at 09:25 PM by 75.143.68.139 -
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  1. MEGA4 for phylygeny
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  1. MEGA4 for phylogeny
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May 06, 2009, at 09:24 PM by 75.143.68.139 -
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Web-based tools

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Web-based tools for teaching

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Standalone tools

  1. MEGA4
  2. SWISS PDB Viewer
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Standalone tools for teaching

  1. MEGA4 for phylygeny
  2. SWISS PDB Viewer for protein structure
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May 06, 2009, at 09:23 PM by 75.143.68.139 -
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  1. R
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  1. R statistical programming and environment
  2. GGobi data visualization
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May 06, 2009, at 09:21 PM by 75.143.68.139 -
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  1. R
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May 06, 2009, at 09:18 PM by 75.143.68.139 -
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Web-based tools

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Web-based tools

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Standalone tools

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Standalone tools

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May 06, 2009, at 09:18 PM by 75.143.68.139 -
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Web-based tools

  1. NCBI
  2. NCBI BLAST
  3. EBI Pairwise seq alignment
  4. Graphic pairwise seq alignment by dynamic programming
  5. Pairwise alignment applet
  6. EBI ClustalW
  7. Viterbi Applet, UMB
  8. WebLogo
  9. Online Phylogeny Construction, Marseille, France

Standalone tools

  1. MEGA4
  2. SWISS PDB Viewer
  3. Dendroscope for tree presentation
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