This site is no longer maintained and has been left for archival purposes

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Analyse v 1.3

2nd February 2009
Version 1.3 is the first non beta-test version of Analyse. During the course of producing the publications below, and with the help of the beta testers, we believe all of the known bugs have been addressed. Certainly the application is now extremely stable, and the implementations of likelihood based algorithms are consistent. Note however, that the software is provided AS IS, as described in the licensing below.

Publications using version 1.3

Kawakami, T., R. K. Butlin, et al. "Genetic analysis of a chromosomal hybrid zone in the Australian morabine grasshoppers (Vandiemenella, Viatica species group)." Evolution 63(1): 139-152. (2009).

Macholan, M., S. J. E. Baird, et al. "Genetic conflict outweighs heterogametic incompatibility in the mouse hybrid zone?" Bmc Evolutionary Biology 8. (2008).

Kawakami, T., R. K. Butlin, et al. "Differential gene flow of mitochondrial and nuclear DNA markers among chromosomal races of Australian morabine grasshoppers (Vandiemenella, viatica species group)." Molecular Ecology 16(23): 5044-5056. (2007).

Macholan, M., P. Munclinger, et al. "Genetic analysis of autosomal and X-linked markers across a mouse hybrid zone." Evolution 61(4): 746-771. (2007).

Schemske, D. W. and P. Bierzychudek. "Spatial differentiation for flower color in the desert annual Linanthus parryae: Was Wright right?" Evolution 61: 2528-2543. (2007).

Yanchukov, A., S. Hofman, et al. "Hybridization of Bombina bombina and B-variegata (Anura, Discoglossidae) at a sharp ecotone in western Ukraine: Comparisons across transects and over time." Evolution 60(3): 583-600. (2006).

Alexandrino, J., S. J. E. Baird, et al. "Strong selection against hybrids at a hybrid zone in the Ensatina ring species complex and its evolutionary implications." Evolution 59(6): 1334-1347. (2005).

Brumfield, R. T. "Mitochondrial variation in Bolivian populations of the variable antshrike (Thamnophilus caerulescens)." Auk 122(2): 414-432. (2005).

Raufaste, N., A. Orth, et al. "Inferences of selection and migration in the Danish house mouse hybrid zone." Biological Journal of the Linnean Society 84(3): 593-616. (2005).

Takami, Y. and H. Suzuki. "Morphological, genetic and behavioural analyses of a hybrid zone between the ground beetles Carabus lewisianus and C albrechti (Coleoptera, Carabidae): asymmetrical introgression caused by movement of the zone?" Biological Journal of the Linnean Society 86(1): 79-94. (2005).

Babik, W., J. M. Szymura, et al. "Nuclear markers, mitochondrial DNA and male secondary sexual traits variation in a newt hybrid zone (Triturus vulgaris x T-montandoni)." Molecular Ecology 12(7): 1913-1930. (2003).

Morgan-Richards, M. and G. P. Wallis "A comparison of five hybrid zones of the weta Hemideina thoracica (Orthoptera : Anostostomatidae): Degree of cytogenetic differentiation fails to predict zone width." Evolution 57(4): 849-861. (2003).

Vines, T. H., S. C. Kohler, et al."The maintenance of reproductive isolation in a mosaic hybrid zone between the fire-bellied toads Bombina bombina and B-variegata." Evolution 57(8): 1876-1888. (2003).

Brumfield, R. T., Jernigan, R. W., McDonald, D. B. & Braun, M. J. Evolutionary implications of divergent clines in an avian (Manacus : Aves) hybrid zone. Evolution 55, 2070-2087 (2001).

Bridle, J. R., Baird, S. J. E. & Butlin, R. K. Spatial structure and habitat variation in a grasshopper hybrid zone. Evolution 55, 1832-1843 (2001).

Gunduz, I., Lopez-Fuster, M. J., Ventura, J. & Searle, J. B. Clinal analysis of a chromosomal hybrid zone in the house mouse. Genetical Research 77, 41-51 (2001).

Marshall, J. C. & Sites, J. W. A comparison of nuclear and mitochondrial dine shapes in a hybrid zone in the Sceloporus grammicus complex (Squamata : Phrynosomatidae). Molecular Ecology 10, 435-449 (2001). 2000:
Morgan-Richards, M., Trewick, S. A. & Wallis, G. P. Characterization of a hybrid zone between two chromosomal races of the weta Hemideina thoracica following a geologically recent volcanic eruption. Heredity 85, 586-592 (2000).

Future versions of Analyse

Analyse was originally written in Pascal. Pascal is nolonger supported by CodeWarrior, the devellopment environment that SJEB has been using for the Analyse project. The next version will therefore be a complete rewrite of the algorithms in C++. The existing functionality of Analyse will be incorporated into a fully theaded MacOS X/Unix savvy application now under construction by SJEB, and imaginatively called Analyse 2.0.
The development of Analyse 1.1 was funded by the  National Environment Research Council


Copyright (c) 1998 Nick Barton and Stuart J. E. Baird. Redistribution and use in binary form is permitted provided that the above copyright notice and this paragraph are duplicated in all such forms and that any documentation, advertising materials, and other materials related to such distribution and use acknowledge that the software was developed by N. H. Barton and Stuart J.E. Baird. Specifically, use in the preparation of published scientific work must be acknowledged by citation in the bibliography of the publication.  The names of the developers may not be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED "AS IS" AND WITHOUT ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, WITHOUT LIMITATION, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.

If you agree to the above liscensing conditions, you may  download Analyse

If you have questions not answered in the documentation and FAQs above, email

This site is no longer maintained and has been left for archival purposes

Text and links may be out of date