liberles.cst.temple.edu

www.liberles.cst.temple.edu

Welcome to the Liberles Software Download Page. This site is the home of bioinformatics and computational biology research for the Liberles group at Temple University (Philadelphia, PA, USA). Liberles Research Group Home Page. Liberles Research Home Page. The Adaptive Evolution Database (TAED) Home Page. Software developed for download and use by the Liberles Research Group. Phylo3D and Walrus Download Page. Other software for download. Data and Software from Tim Hughes' Dissertation.

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www.liberles.cst.temple.edu | liberles.cst.temple.edu Reviews

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Welcome to the Liberles Software Download Page. This site is the home of bioinformatics and computational biology research for the Liberles group at Temple University (Philadelphia, PA, USA). Liberles Research Group Home Page. Liberles Research Home Page. The Adaptive Evolution Database (TAED) Home Page. Software developed for download and use by the Liberles Research Group. Phylo3D and Walrus Download Page. Other software for download. Data and Software from Tim Hughes' Dissertation.

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3 sara download page

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www.liberles.cst.temple.edu | liberles.cst.temple.edu Reviews

https://liberles.cst.temple.edu

Welcome to the Liberles Software Download Page. This site is the home of bioinformatics and computational biology research for the Liberles group at Temple University (Philadelphia, PA, USA). Liberles Research Group Home Page. Liberles Research Home Page. The Adaptive Evolution Database (TAED) Home Page. Software developed for download and use by the Liberles Research Group. Phylo3D and Walrus Download Page. Other software for download. Data and Software from Tim Hughes' Dissertation.

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liberles.cst.temple.edu

1

SARA (Side-chain Angular Replacement Algorithm)

https://liberles.cst.temple.edu/Software/SARA/index.html

SARA (Side-chain Angular Replacement Algorithm) 1.0. SARA was written by Johan Grahnen in object-oriented C and is encapsulated in a collection of classes for easy integration with existing software. SARA is maintained by David Liberles. Changing The Energy Function. Using A Local Copy Of GCC. We supply SARA 1.0 as a compressed archive containing a pre-compiled 32-bit Linux executable, the C source code and some brief documentation. Why not download SARA. And try it out right now? For a listing of compat...

2

Softparsmap - A soft parsimony based approach for gene tree species tree reconciliation

https://liberles.cst.temple.edu/Software/Phylo3D_walrus/index.html

Softparsmap (gene tree species tree reconicilation using parsimony). This software was developed by Tim Hughes et al., 2006. A paper explaining how it functions can be downloaded at: Visualising very large phylogenetic trees in three dimensional hyperbolic space. This program uses both the phylo3D software and the walrus software to visualize 3-dimenisonal hyperbolic space. The above paper describes how to use each program. Please refer all questions about these programs to David Liberles.

3

The Adaptive Evolution Database

https://liberles.cst.temple.edu/TAED/index.html

This site will look much better in a browser that supports web standards. But it is accessible to any browser or Internet device. Skip Navigation skip menu and banner. Liberles Software Download Page. Welcome to The Adaptive Evolution Database. The TAED database currently viewable on this version of the website is not complete. It will be updated as more data becomes available. Objectives and Goals of TAED. The six primary functions are tabs across the top of each screen within TAED. Is the Chordate spec...

4

Softparsmap - A soft parsimony based approach for gene tree species tree reconciliation

https://liberles.cst.temple.edu/Software/Softparsmap/index.html

Softparsmap (gene tree species tree reconicilation using parsimony). This software was developed by A.C. Berglund, et al., 2006. A paper explaining how it functions can be downloaded at: Optimal Gene Trees from Sequences and Species Trees Using a Soft Interpretation of Parsimony. A quick start guide for using Softparsmap may be found at quick start guide. Please refer all questions about these programs to David Liberles. This website was last edited on June 16, 2015.

5

CASS (Coarse-grained Artificial Sequence simulator)

https://liberles.cst.temple.edu/Software/CASS/index.html

CASS (Coarse-grained Artificial Sequence Simulator) 1.1. CASS 1.0 was written by Johan Grahnen in object-oriented C and is encapsulated in a collection of classes for ease of integration with existing software. It is open-source and freely available under the GPL v3 license. CASS 1.1 and up is maintained by David Liberles. With contributions from Nadia Bykova. And try it out right now? Refer to the paper describing the algorithm. And this web page for further details. To date, CASS has been successfully ...

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Welcome to the Liberles Software Download Page. This site is the home of bioinformatics and computational biology research for the Liberles group at Temple University (Philadelphia, PA, USA). Liberles Research Group Home Page. Liberles Research Home Page. The Adaptive Evolution Database (TAED) Home Page. Software developed for download and use by the Liberles Research Group. Phylo3D and Walrus Download Page. Other software for download. Data and Software from Tim Hughes' Dissertation.

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