Dnatree 1.3 – DNA Phylogeny Teaching Program

Dnatree 1.3

:: DESCRIPTION

DNATREE is a computer program that simulates the branching of an evolutionary tree, using a model of random branching of lineages. It then evolves a DNA sequence along this tree, and displays the resulting sequences. The user can save the tree and the sequences if they want to use them in other programs. The user can control the expected rate of evolution of the sequences per unit time, and the transition/transversion ratio.

::DEVELOPER

Joseph Felsenstein

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / MacOsX / Linux

:: DOWNLOAD

Dnatree

:: MORE INFORMATION

Citation:

Kuhner, M. K. and J. Felsenstein. 1994.
A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates.
Molecular Biology and Evolution 11: 459-468 (Erratum 12: 525 1995).

Translate.wdgt – DNA/Protein Conversions

Translate.wdgt

:: DESCRIPTION

Translate.wdgt is for DNA/Protein conversions.

Manipulates DNA or protein sequences.

  • Translate DNA to protein, 3 frames
  • Reverse translate protein to DNA, using human-optimized codons
  • Format (60 characters per line in groups of 10, numbered at line breaks)
  • Scramble
  • Make antiparallel (complementary) strand

::DEVELOPER

Ian York

:: SCREENSHOTS

:: REQUIREMENTS

  • MacOS 10.4 or higher

:: DOWNLOAD

Translate.wdgt

:: MORE INFORMATION

N/A

Bio2MIDI 2.1 – Convert DNA or Protein Sequence to MIDI file

Bio2MIDI 2.1

:: DESCRIPTION

Bio2Midi converts the text of a DNA or protein sequence to a MIDI file, which you may immediately audition, or import into any MIDI sequencer for further compositional processing.

::DEVELOPER

Algorithmic Arts

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

Bio2MIDI

:: MORE INFORMATION

N/A

TOUR OF THE BASICS – Introduce DNA & Genes

TOUR OF THE BASICS

:: DESCRIPTION

TOUR OF THE BASICS is a flash animated tour of  DNA & Genes.

::DEVELOPER

Genetic Science Learning Center

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Mac OsX

:: DOWNLOAD

TOUR OF THE BASICS for win ; for MacOsX

:: MORE INFORMATION

Funding provided by a grant from The R. Harold Burton Foundation.

 

GeneSplicer – Detecting Splice Sites in Eukaryotic Genomic DNA

GeneSplicer

:: DESCRIPTION

GeneSplicer is a fast, flexible system for detecting splice sites in the genomic DNA of various eukaryotes. The system has been trained and tested successfully on Plasmodium falciparum (malaria), Arabidopsis thaliana, human, Drosophila, and rice . Training data sets for human and Arabidopsis thaliana are included.

::DEVELOPER

the Center for Bioinformatics and Computational Biology

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

GeneSplicer

:: MORE INFORMATION

The GeneSplicer software is OSI Certified Open Source Software.

Citation:

Pertea , X. Lin , S. L. Salzberg . GeneSplicer : a new computational method for splice site prediction . Nucleic Acids Res . 2001 Mar 1;29(5):1185-90 .