A Simulation Framework for Genome Evolution Long Description (required)
Artificial Life Framework (ALF) aims at simulating the entire range of evolutionary forces that act on genomes: nucleotide, codon, or amino acid substitution (under simple or mixture models), indels, GC-content amelioration, gene duplication, gene loss, gene fusion, gene fission, genome rearrangement, lateral gene transfer (LGT), or speciation. ALF is available as a stand-alone application and a user-friendly yet powerful web interface.
Step 1: Use the attribute tree to add new attributes or remove pre-selected attributes to describe the simulator.
Every sub-attribute is selected Not all sub-attributes are selectedFill Clear Expand Collapse Reset
Summary of Proposed Changes Step 2: Review list of proposed attribute addition(s) and subtraction(s).
Can't Find the Attribute You Are Looking For? If you would like to propose an attribute that you cannot find in the tree above, or if you would like to add a clarification to one or more attributes for this simulator (e.g. a specific file format for attribute /Output/File Format/Other), please list them in the Additional Comment box of the Submit tab .
Summary of Proposed Changes Current Citations/Applications
[Pubmed ID: 22160766 ],
Dalquen DA, Anisimova M, Gonnet GH, Dessimoz C ,
ALF--a simulation framework for genome evolution. ,
Mol Biol Evol ,
04-01-2012 ,
https://www.ncbi.nlm.nih.gov/pubmed/?term=22160766, Primary Citation
[Pubmed ID: 35426933 ],
Briand S, Dessimoz C, El-Mabrouk N, Nevers Y ,
A Linear Time Solution to the Labeled Robinson-Foulds Distance Problem. ,
Syst Biol ,
10-12-2022 ,
https://www.ncbi.nlm.nih.gov/pubmed/?term=35426933, , Application
[Pubmed ID: 36561179 ],
Dylus D, Altenhoff A, Majidian S, Sedlazeck FJ, Dessimoz C ,
Read2Tree: scalable and accurate phylogenetic trees from raw reads. ,
bioRxiv ,
12-13-2022 ,
https://www.ncbi.nlm.nih.gov/pubmed/?term=36561179, , Application