The University of Arizona
SyMAP - Synteny Mapping and Analysis Program  
AGCoL | SyMAP Home | Release Notes | System Guide | User Guide | Tour | Troubleshooting


SyMAP v4.2 (Synteny Mapping and Analysis Program) is a software package for detecting,displaying, and querying syntenic relationships between sequenced chromosomes and/or FPC physical maps. It is designed for medium-to-high divergent eukaryotic genomes (not bacteria). It can align a draft genome to a fully sequenced genome, but not draft-to-draft. It can perform self-synteny. SyMAP is slow with MariaDB 10.4.7.

  • The SyMAP package includes demo files for synteny computation using fully sequenced chromosomes, draft contig sets, and FPC physical maps.
  • The System Guide provides instructions on the running the demo and creating projects
  • The User Guide explains the interactive displays and Tour provides a visual tour.
  • SyMAP can run as a standalone desktop application or from the web .

Download - v4.2 released 1/16/18
  Package - executable and demo
  Source - code from github
Documentation
  System Guide
  User Guide
  Release Notes
  SyMAP Tour


This project is supported by the National Research Initiative of USDA's National Institute of Food and Agriculture, grant #0214643.

Reference
C. Soderlund, M. Bomhoff, and W. Nelson (2011) SyMAP v3.4: a turnkey synteny system with application to plant genomes Nucleic Acids Research 39(10):e68 Link

C. Soderlund, W. Nelson, A. Shoemaker and A. Paterson (2006) SyMAP: A system for discovering and viewing syntenic regions of FPC maps. Genome Research 16:1159-1168. Link

Email: symap@agcol.arizona.edu
Last Modified Sunday September 01, 2019 17:21 PM and 02 seconds