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PHYLIPPhylogeny Inference Package (genetics software)
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El tercer paso consistio en la aplicacion del algorritmo UPGMA (unweighted pair group method with arithmetic mean) (20), del mismo paquete PHYLIP, para expresar graficamente los valores FST entre pares de poblacioneslocalidades para cada marcador genetico, mediante la construccion de un arbol de divergencia o diferenciacion genetica y hacer el analisis de los agrupamientos o clusters formados (figuras 1 y 2).
Bootstrap values for the distance and maximum-likelihood analyses were generated with the PHYLIP programs SEQBOOT, DNAML with input order jumbled three times, and CONSENSE.
Phylogenetic analysis was repeated by using the distance (neighbor-joining) method in PHYLIP version 3.
1994) and gave the minimum number of required base changes (554) when this alignment (407 positions) was used as input into the program DNAPARS of the PHYLIP 3.
Phylogenetic trees derived from comparisons of the aligned olfactory receptor genes were constructed by means of distance matrix, neighbor-joining methodologies (with the PHYLIP package), and with parsimony (heuristic searches using the program PAUP, version 3.
2004) and genetic distances were calculated with the DNADIST program of the PHYLIP package, ver.
These trees were entered as user-defined trees in the DNAML (DNA maximum-likelihood) program in the PHYLIP 3.
Cluster analysis was performed by using the PHYLIP 3.
UPGMA trees were constructed using the NEIGHBOR program from the PHYLIP package (Felsenstein 1991).
The phylogenetic trees were reconstructed using the PHYLIP package version 3.
Madison, WI, USA) and evaluated by using neighbor-joining and maximum-parsimony methods in MEGA 4 (10) and the maximum-likelihood method in PHYLIP (11).
html), and the phylogenic trees were constructed with PHYLIP (2,7).