"Phylogeny Programs" is a page describing all software for inferring phylogenies (evolutionary trees) the author knows about, with 334 phylogeny packages and 47 free servers. It is an attempt to be completely comprehensive; the author has not made any attempt to exclude programs that do not meet some standard of quality or importance. Many of the programs in these pages are available on the web, and some of the older ones are also available from ftp server machines. The programs listed include both free and non-free ones. ... [Information of the supplier, modified]
Interactive Tree Of Life is an online tool for the display and manipulation of phylogenetic trees. It provides most of the features available in other tree viewers, and offers a novel circular tree layout, which makes it easy to visualize mid-sized trees (up to several thousand leaves). Trees can be exported to several graphical formats, both bitmap and vector based. There are several pre-computed trees available for display, including the main Tree Of Life, described in Ciccarelli, et al., 2006. In addition to the precomputed trees, you can upload and display your own trees and data, using the 'Data upload' page or through your personal user account. Use the tabs on the top of the page to navigate or click the trees below to proceed to the interactive pages. Extensive help pages, which provide detailed explanation of iTOL's interface and functions, are available. ... [Information of the supplier]
PHYLIP is a free package of programs for inferring phylogenies. It is distributed as source code, documentation files, and a number of different types of executables. These Web pages contain information on PHYLIP and ways to transfer the executables, source code and documentation to your computer. [Information of the supplier, modified]
The Tree of Life Web Project (ToL) is a collaborative effort of biologists from around the world. On more than 3000 World Wide Web pages, the project provides information about the diversity of organisms on Earth, their evolutionary history (phylogeny), and characteristics. Each page contains information about a particular group of organisms (e.g., echinoderms, tyrannosaurs, phlox flowers, cephalopods, club fungi, or the salamanderfish of Western Australia). ToL pages are linked one to another hierarchically, in the form of the evolutionary tree of life. Starting with the root of all Life on Earth and moving out along diverging branches to individual species, the structure of the ToL project thus illustrates the genetic connections between all living things. ... [Information of the supplier]
TreeBASE is a relational database designed to manage and explore information on phylogenetic relationships (Sanderson et al., 1993, 1994; Donoghue, 1994; Donoghue and Ackerly, 1996; Piel et al., 1996; Morel, 1996; Piel et al., 2000). Its main function is to store published phylogenetic trees and data matrices. It also includes bibliographic information on phylogenetic studies, and some details on taxa, characters, algorithms used, and analyses performed. The database is designed to allow retrieval and recombination of trees and data from different studies, and it can be explored interactively using trees included in the database. TreeBASE therefore provides a means of assessing and synthesizing phylogenetic knowledge. (...) The database currently includes 6106 authors, 2946 studies, 8462 trees, and 82043 taxa" (as of December 2011). ... [Information of the supplier]
This series of pages is a set of characterizations of all orders and families of extant angiosperms (flowering plants) and gymnosperms, i.e. all seed plants, as well as many clades grouping families and orders and some smaller clades, especially within larger families. They are designed to help in teaching seed plant phylogeny at a time when our knowledge of the major clades of seed plants and the relationships within and between them are still somewhat in a state of flux, even if much of the broad outline is becoming clear. Here I very largely follow the Angiosperm Phylogeny Group classification (APG 1999, 2003), although with one or two more orders and with a number of unplaced families in slightly more resolved positions in the tree - recent examples are Hydatellaceae, Perrottetia and Bhesa (Zhang & Simmons 2006). ... [Information of the supplier, modified]
The PhyloCode is a formal set of rules governing phylogenetic nomenclature. It is designed to name the parts of the tree of life by explicit reference to phylogeny. The PhyloCode will go into operation in a few years, but the exact date has not yet been determined. It is designed so that it may be used concurrently with the existing codes based on rank-based nomenclature (ICBN, ICZN, etc.). We anticipate that many people whose research concerns phylogeny will find phylogenetic nomenclature advantageous. ... [Information of the supplier]
Assembling the Tree of Life (AToL) is a large research effort sponsored by the National Science Foundation. Its goal is to reconstruct the evolutionary origins of all living things. This AToL: Decapoda project is aimed at clarifying the evolutionary history of the decapods (both fossil and extant), including the shrimp, crabs, crayfish, and lobsters. Our group is comprised of five principal investigators and a host of other collaborators at multiple institutions across the globe. ... [Information of the supplier]
With nearly 150,000 described species, flies (the insect order Diptera), are among the most diverse groups of living organisms on the planet. This diversity transcends simple species numbers and is demonstrated in the great breadth of morphological, ecological, and behavioral variation found in the group. Flies have a deep evolutionary history that extends back to the Permian Period, over 250 million years ago. The FLYTREE project is an international research collaboration funded by the US National Science Foundation, to elaborate and discover the details of fly relationships and diversity with the ultimate goal of providing a newly resolved phylogeny for this major branch of the Tree of Life. ... [Information of the supplier]
This is a database of systematic literature on the Decapoda, compiled by the Assembling the Tree of Life: Decapoda project. You can search references online, or download the entire library as an Endnote-compatible reference library. In many cases, we are able to make the full text of the papers available as PDF files. The online references search will also give information on PDF availability. ... [Information of the supplier]
