Updated 6 / April / 2007
(c) 1999 - 2007 by Dmitry Filatov,
(c) 1999 - 2007 by Dmitry Filatov,
ProSeq is a Windows program for sequence editing and population genetics (mol/evol) analysis.
ProSeq is quite a convenient tool for sequence handling (correcting ABI chromatograms, contig assembly, hand correction of the alignments etc.) and preliminary molecular evolution analysis. However, it is recommended to check the results of the analyses by the other software since the program is under development and not all the parts of the program are thoroughly tested and completely reliable (please let me know if you found a problem!). The program have not been updated since 2002 because the new (v3) cross-platform (Windows / Linux ) version is under development now. The currently distributed v2.9 is the final release of the 2.x versions. This Windows-only version will not be developed any further.
Citation:
Filatov D.A. 2002 ProSeq: A software for preparation and evolutionary analysis of DNA sequence data sets. Molecular Ecology Notes 2, 621-624
Download ProSeq2 as self extracting zip file (1.06 Mb) which includes ProSeq v 2.9, help and test files
Download new ProSeq3 (under development version) for Windows and for Linux
Here are some ProSeq v.2.9 features:
Multi-window (MDI) interface - can handle as many alignments as you want
Data import in PSF, NEXUS, NBRF-PIR, MEGA-GDE, ClustalX, ABI chromatogram files, plain text, GenBank
Data export in PSF, NEXUS, NBRF-PIR, MEGA-GDE, ClustalX, Sites, Excel (*.csv), PHYLIP, plain text, GenBank
Pairwise sequence alignment (multiple alignment is not yet implemented)
Contig assembly tool
ABI chromatogram viewer
Convenient sequence editing: inserting, deleting, mark-copy-cut-paste, translating, splicing (removing introns or exons), displaying only polymorphic sites both for DNA and protein sequences...
The common population genetic sequence analyses: DNA polymorphism, tests of neutrality, estimation of linkage disequilibrium, population subdivision (incl. permutation tests)…
Basic phylogenetic analysis (NJ only)
Tree viewer
Several tools for coalescent simulations with intragenic recombination.
Send your bug reports to D.Filatov@bham.ac.uk
