PhyloCon


Phylogenetic Consensus for Regulatory Motif Identification
Update 1-22-2007

Welcome!

This update doesn't contain changes to the code.
The protocol of using PhyloCon is going to be published in Current Protocols in Bioinformatics.
This section contains data used in the protocol for download.

  • Executable for linux: PhyloCon-v3b.linux
  • Source Code: PhyloCon-v3b.tar.gz
  • Auxiliary Scripts: PhyloCon-aids.tar.gz
  • Sample sequence file: LEU3.pcons
  • Sample output file: LEU3.pout
  • Sample matrix file: LEU3.matrix
  • Sample LOGO file: LEU3.gif
  • Sample sequence file: LEU3_2.pcons
  • Sample output file: LEU3_2.pout
  • Sample matrix file: LEU3_2.matrix
  • Sample LOGO file: LEU3_2.gif


  • Update 12-20-2004

    Welcome PhyloCon lovers! (Or at least I hope that you will soon become one... )

    A few bugs have been fixed over the last months.
    A new statistic "TLLR" is used to rank motifs identified in
    different cycles (publication pending). Give it a try, tell you if you like it, don't like, how do
    you want me to improve it, etc. I know there's still some
    bugs, so check back for newer compiles.
    Good luck and have a nice day!

  • Executable for linux: PhyloCon-v3b.linux
  • Source Code: PhyloCon-v3b.tar.gz


  • Update 12-18-2003

    Welcome PhyloCon lovers! (Or at least I hope that you will soon become one... )

    This update contains a slightly improved version of PhyloCon,
    both source code and executable, a more detailed README file,
    an example sequence file and its result.
    Give it a try, tell you if you like it, don't like, how do
    you want me to improve it, etc. I know there's still some
    bugs, so check back for newer compiles.
    Good luck and have a nice day!

  • The paper: PhyloCon paper
  • Executable for linux: PhyloCon-v3a.linux
  • Source code: PhyloCon-v3a.tar.gz
  • README/help page: README
  • A sample sequence file: sample.pcons
  • What does it look like when you run it: sample.out


  • Update 02-28-2003
  • Executable for linux PhyloCon_v2a.linux
  • Source code PhyloCon_v2a.tar.gz