PHYLIP (Phylogeny Inference Package)

By Michael P. Cummings. 2004

4,195 citations recorded by the source corpus.

Subfields: Ecology, Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/9faf1d840908fa83bf73f5e6f427f21c899e6472

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Ecology

1. Carlos M. Duarte
2. R. Coey
3. S. Arnaud-Haond
4. Elena Díaz-Almela
5. F. Alberto
6. Alexandros Stamatakis
7. J. Mccown
8. Wolfgang Ludwig

In Genetics

1. S. Arnaud-Haond
2. Olivier J. Hardy
3. Jongsik Chun
4. J. Forster
5. Noel O. I. Cogan
6. L. Pembleton
7. X. Vekemans
8. Mira V. Han

In Molecular Biology

1. Alexandros Stamatakis
2. Jongsik Chun
3. Mira V. Han
4. E. van Nimwegen
5. Mikhail Pachkov
6. P. Rainey
7. Frederic Bertels
8. O. Silander

Citations in the corpus

• Automated Reconstruction of Whole-Genome Phylogenies from Short-Sequence Reads (2014, methodology): “Based on the final set of DNA sequence alignment columns, the pipeline determines a phylogenetic tree by applying PhyML (Guindon et al. 2010, default parameters) or Dnapars (a maximum parsimony method; Felsenstein 2005).”
• Worldwide migration of parasitic mites as a result of bumblebee commercialization (2006, neutral): “The sequences obtained were aligned by using the computer software CLUSTAL W (Thompson et al. 1994), and the alignment data were imported into the PHYLIP version 3.6 software package (Felsenstein 1989).”
• A Survey of Data-Intensive Scientific Workflow Management (2015, background): “The fifth activity (tree construction) receives the “phylip-file-one” as input and produces a phylogenetic tree [51] as output.”