EditGDS 1.0 – A visual tool for Browsing and Editing GDS files

4SALE allows a fast sequence and synchronous secondary structure alignment for large data sets and for the first time synchronous manual editing of aligned sequences and their secondary structures. This study describes an algorithm for the synchronous alignment of sequences and their associated secondary structures as well as the main features of 4SALE used for further analyses and editing. 4SALE builds an optimal and unique starting point for every RNA sequence and structure analysis.

::DEVELOPER

Department of Bioinformatics, Biocenter, University of Würzburg, Germany

:: SCREENSHOTS

:: REQUIREMENTS

Windows / Mac / Linux
Java

:: DOWNLOAD

4SALE

:: MORE INFORMATION

Citation

Seibel PN, Müller T, Dandekar T & M Wolf (2008):
Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE
BMC Research Notes 2008, 1:91.

DNA for Windows 2.51 – DNA Sequence Editing & Analysis Program

DNA for Windows 2.51

:: DESCRIPTION

DNA for Windows is a compact, easy to use DNA analysis program, ideal for small-scale sequencing projects. It is particularly suited to working with chromatogram files from ABI machines, and is one of the few programs able to edit as well as view these files. The program has powerful DNA translation and restriction enzyme analysis facilities, and works with external programs to produce multiple alignments and contigs with ease.

::DEVELOPER

David Dixon

:: SCREENSHOTS

:: REQUIREMENTS

Windows

:: DOWNLOAD

DNA for Windows

:: MORE INFORMATION

If you find the program useful, don’t forget to register – you will receive the latest version which already has a number of significant improvements over the evaluation version.

DNPTrapper 1.0 – Assembly Editing & Visualization Tool

DNPTrapper 1.0

:: DESCRIPTION

DNPTrapper, a shotgun sequence finishing tool, designed to address the key sequence assembly problems caused by repeated regions in a genome. The program detects and visualizes single nucleotide differences between nearly identical repeat copies, and offers the overview and flexibility needed to rapidly resolve complex regions within a working session. The use of a database allows large amounts of data to be stored and handled, and allows viewing of mammalian size genomes. With DNPTrapper, it is possible to separate repeated regions that previously were considered impossible to resolve, and finishing tasks that previously took days or weeks can be resolved within hours or even minutes.

::DEVELOPER

Tammi Lab

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

DNPTrapper

:: MORE INFORMATION

Citation:

BMC Bioinformatics, 2006 Mar 20; 7:155
DNPTrapper: an assembly editing tool for finishing and analysis of complex repeat regions.
Arner, E, Tammi, MT, Tran, AN, Kindlund, E, Andersson B.