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ProfDist and ProfDistS: tools for the construction of large phylogenetic trees based on profile distances  

2011-09-15 09:20:49|  分类: 生物信息分析 |  标签: |举报 |字号 订阅

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ProfDist is a user-friendly software package using the profile-neighbor-joining method (PNJ) in inferring phylogenies based on profile distances on DNA or RNA sequences. It is a tool for reconstructing and visualizing large phylogenetic trees providing new and standard features with a special focus on time efficency, robustness and accuracy.

The Profile Neighbor Joining (PNJ) algorithm as implemented in the software ProfDist is computationally efficient in reconstructing very large trees. Besides the huge amount of sequence data the structure is important in RNA alignment analysis and phylogenetic reconstruction.

For this ProfDistS provides a phylogenetic workflow that uses individual RNA secondary structures in reconstructing phylogenies based on sequence-structure alignments—using PNJ with manual or iterative and automatic profile definition. Moreover, ProfDistS can deal also with protein sequences.

Availability: ProfDistS is freely available for non-commercial use for Windows, Linux and MAC operating systems at http://profdist.bioapps.biozentrum.uni-wuerzburg.de

A Windows version of ProfDist comes with a graphical user interface and is freely available at 

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