4Peaks 1.8 – View & Edit DNA Sequence Trace Files

4Peaks 1.8

:: DESCRIPTION

4Peaks helps molecular biologists to visualize and edit their DNA sequence trace 4Peaks renders your traces sharper, automatically translate your sequences, reads the most common sequence file formats, displays important sequence quality data too.

::DEVELOPER

Nucleobytes

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  •  Mac OsX

:: DOWNLOAD

 4Peaks

:: MORE INFORMATION

MyBioNet – Visualize, Edit and Merge Biological Networks

MyBioNet

:: DESCRIPTION

Mybionet is a web-based application of biological networks, allowing users to visualize, edit, merge biological networks and search, navigate KEGG metabolic networks.

::DEVELOPER

BIS @ Zhejiang University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web BRowser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Bioinformatics. 2011 Dec 1;27(23):3321-2. doi: 10.1093/bioinformatics/btr557.
MyBioNet: interactively visualize, edit and merge biological networks on the web.
Huang D, Huang Y, Bai Y, Chen D, Hofest?dt R, Klukas C, Chen M.

ChromatoGate 1.2 – Analyze / Edit Chromatogram data

ChromatoGate 1.2

:: DESCRIPTION

ChromatoGate (CG) has been created to accelerate the process of detecting possible errors in DNA sequences that have been introduced by Sanger sequencers. To detect possible errors in the sequences, CG starts from the multiple-sequence alignment instead of inspecting every sequence separately.

::DEVELOPER

the Exelixis Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows

:: DOWNLOAD

 ChromatoGate

:: MORE INFORMATION

Citation

ChromatoGate: A Tool for Detecting Base Mis-Calls in Multiple Sequence Alignments by Semi-Automatic Chromatogram Inspection
Nikolaos Alachiotis, Emmanouella Vogiatzi, Pavlos Pavlidis, Alexandros Stamatakis
7th conference of the Hellenic Society for Computational Biology and Bioinformatics Volume No: 6, Issue: 7, March 2013, e201303001,

KGML-ED 1.0 – Edit, Process, and Visualize KGML pathway files

KGML-ED 1.0

:: DESCRIPTION

KGML-ED supports the dynamic exploration and editing of KEGG Pathway diagrams. It is a graphical network editor, that provides read- and write-support for the KGML (KEGG Markup Language) file format. Pathway files are loaded and transformed into a graph network which may be modified to fulfill user-specific needs (e.g. it is possible, to delete or add network elements, change labels and colors). Novel network exploration approaches are supported by the system as well.

::DEVELOPER

Bioinformatics @ IPK Gatersleben

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux/  MacOSX
  • Java

:: DOWNLOAD

 KGML-ED

:: MORE INFORMATION

Citation

Christian Klukas and Falk Schreiber
Dynamic exploration and editing of KEGG pathway diagrams.
Bioinformatics 2007 23: 344-350.

Sequence Scanner 1.0 – View, Edit, Print and Export sequence data

Sequence Scanner 1.0

:: DESCRIPTION

Sequence Scanner Software enables you to view, edit, print and export sequence data generated using the Applied Biosystems Genetic Analyzers. The software generates graphically expressive reports on results.

::DEVELOPER

Life Technologies

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

Sequence Scanner

:: MORE INFORMATION

Ghemical 3.0.0 – Molecular Modeling and Editing Package for GNOME

Ghemical 3.0.0

:: DESCRIPTION

Ghemical is a molecular modeling and editing package for GNOME. It integrates a molecular mechanics force field as well as integration with MOPAC and optionally the MPQC package for quantum mechanical calculations. It integrates Open Babel to import/export to a variety of external programs.

::DEVELOPER

Ghemical Team

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

  Ghemical

:: MORE INFORMATION

Citation

Tommi Hassinen, Mikael Peräkylä:
New energy terms for reduced protein models implemented in an off-lattice force field.
J Comput Chem 2001 , 22, 1229-1242

PhyloWidget – View, Edit, and Publish Phylogenetic Trees

PhyloWidget

:: DESCRIPTION

PhyloWidget is a program for viewing, editing, and publishing phylogenetic trees online. It is small, contains a simple yet powerful user interface, and contains many novel features not available in other phylogenetic viewers

::DEVELOPER

Gregory Jordan 

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Windows / Mac OsX
  • Java

:: DOWNLOAD

 PhyloWidget

:: MORE INFORMATION

Citation

PhyloWidget: web-based visualizations for the tree of life
Gregory E. Jordan; William H. Piel
Bioinformatics 2008 24: 1641-1642