Haplophyle

Haplophyle, a graphical haplotype network in the light of external data, is developed for phylogeographic analysis. 
The analysis of haplotype networks is combined with geographic data.
Haplophyle thus reconstructs genealogies based on haplotypes, in relation to geographic patterns.

At present the modern assessment of the genetic diversity of germplasm is the result of genotyping analysis of DNA markers and nucleic acid sequencing.
Tightly linked markers will result in close linkage of patterns of polymorphisms, which are little affected by recombination. They will reflect the domestication history of the crop. The analysis of polymorphisms can thus lead to the identification of predominant haplotypes, which can subsequently be linked with their geographic location. In addition to the identification of predominant haplotypes, the interference of ancestral haplotypes and recombination can be discerned.

The webservice of the Haplophyle pipeline includes haplotype definition, haplotype network analysis and connexion with external data, such as geographic origin, evolutionary history or genetic group assessment. The Network Construction Option offers the choice for a calculation as a Median Joining Network or as a Minimum Spanning Network.
The results are visualized in by tree-wise display of the organized haplotypes.

 

back
back to the GCP bioinformatics portal page