:: DESCRIPTION
Chromas is a low-cost chromatogram file editor with search, vector sequence detection and multi-format sequence export functions, plus powerful batch processing.
ChromasPro is a low-cost sequence and chromatogram editor with search, vector sequence detection, contiguous sequence assembly and restriction and open-reading-frame mapping.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
Sequlator is a free multiple sequence alignment editor with a pairwise alignment function. Sequlator can be used merely as a tool for viewing and manipulating multiple alignments of nucleotide sequences, but the main purpose of Sequlator is to facilitate analysis of sequences produced by sequencing of newly isolated recombinant plasmids or PCR fragments. During molecular cloning of gene transcripts or DNA fragments undesired spontaneous mutations may be introduced into recombinant vectors.
::DEVELOPER
sequlator@gmail.com.
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
JChemPaint (or JCP ) is the editor and viewer for 2D chemical structures developed using CDK. It is implemented in several forms: a Java application and two varieties of Java applet.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
“JChemPaint – Using the Collaborative Forces of the Internet to Develop a Free Editor for 2D Chemical Structures”
Stefan Krause, Egon Willighagen and Christoph Steinbeck.
Molecules 5, 93-98 (2000).
:: DESCRIPTION
SBMLeditor is a portable (written in Java), low-level, tree-structured editor for SBML. It supports annotations and validation.
Users can create and remove all the necessary bits and pieces of SBML in a controlled way, that maintains the validity of the final SBML file. SBMLeditor provides the ability to use the annotation framework, based on RDF and dublin core elements and now part of SBML since SBML Level 2 Version 2. Some functions provided by libSBML are available if the library is setup properly on the system.
::DEVELOPER
Computational Systems Neurobiology Group, EBI
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citations
Rodriguez N, Donizelli M, Le Novère N (2007)
SBMLeditor: effective creation of models in the Systems Biology Markup Language (SBML).
BMC Bioinformatics, 8:79
[PMID: 17341299] [doi:10.1186/1471-2105-8-79]
:: DESCRIPTION
Garlic is a free molecular visualization program for protein structure, DNA structure, PDB, molecular rendering and biological macromolecule in unix, linux system.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
NGSView (Next Generation Sequence View) is a software for high-throughput sequencing technologies introduce novel demands on tools available for data analysis.
::DEVELOPER
Erik Arner, PhD
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2010 Jan 1;26(1):125-6. Epub 2009 Oct 24.
NGSView: an extensible open source editor for next-generation sequencing data.
Arner E, Hayashizaki Y, Daub CO.
:: DESCRIPTION
CINEMA 5 (Colour INteractive Editor for Multiple Alignments) is an interactive visual tool for the interpretation and manipulation of protein and DNA sequences. CINEMA 5 allows the user to interactively construct and edit and visualise multiple sequence alignments.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2002 Oct;18(10):1402-3.
CINEMA-MX: a modular multiple alignment editor.
Lord PW, Selley JN, Attwood TK.
:: DESCRIPTION
MASE (Multiple aligned sequence editor) was designed to simplify the manipulation of aligned sequence sets. It contains functionality for many of the common tasks related to this goal. In addition, mase was designed with a very modular approach, making additions or modifications to the code straightforward.
:: DEVELOPER
Don Faulkner (faulkner@mbcrr.harvard.edu) & Jerzy Jurka
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
MASE (Multiple Alignment Sequence Editor,
D.Faulkner and J.Jurka,
Trends Biochem Sci. 1988 Aug;13(8):321-2.
:: DESCRIPTION
Ridom TraceEdit is a cross-platform graphical DNA trace viewer and editor. TraceEdit displays the chromatogram files from Applied Biosystems automated sequencers and files in the Staden SCF format. Incorrect base calls can be edited and saved.
::DEVELOPER
Ridom GmbH, Germany
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2006 Feb 15;22(4):493-4. Epub 2005 Dec 15.
Ridom TraceEdit: a DNA trace editor and viewer.
Rothgänger J, Weniger M, Weniger T, Mellmann A, Harmsen D.
:: DESCRIPTION
ConStruct (construction of RNA consensus structures) is an RNA alignment editor and consensus structure prediction tool. It combines multiple sequence alignment, thermodynamic structure prediction and statistics in a semiautomatical fashion. Its sophisticated GUI guides the user through correcting an initial sequence alignment with respect to a consensus structure.
::DEVELOPER
Gerhard Steger <steger@biophys.uni-duesseldorf.de>,Heinrich-Heine-Universität Düsseldorf, Institut für Physikalische Biologie, Universitätsstr
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Wilm, A., Linnenbrink, K. & Steger, G. (2008)
ConStruct: improved construction of RNA consensus structures.
BMC Bioinformatics 9, 219.
