Interactive Biosoftware

Alamut® - Mutation Interpretation Software

Alamut Are you a molecular biologist studying human DNA sequence variations? Alamut is tailor-made for you.

Canova - CNV Analysis

Canova is a prototype application designed to help interpret observed copy number variations (CNVs) found in array CGH experiments.

Given a genomic range, Canova displays an annotated list of genes and variations from the Database of Genomic Variants.

Genetic Literature Text Mining

Alamut uses Talamut, a search engine dedicated to genetic mutations cited in PubMed. You can try it here.

You can also try our experimental tool Correl: it displays graphs of correlated genes, based on statistical frequencies of co-occurrent terms in literature.

GeneSplicer

We have compiled GeneSplicer, a system for detecting splice sites, for Windows and Mac OS X. The full package is available here.

EMBOSSWin

EMBOSSWin is a Windows port of EMBOSS, a free Open Source software analysis package specially developed for the needs of the molecular biology user community.

EMBOSSWin is available here.

A Python ABIF (.ab1/.fsa) file reader

If you need to read trace files from Applied Biosystems sequencers (".ab1" files), or fragment analysis files (".fsa" files), in Python, you can freely use this code. It is released under the GNU General Public License.

ABIFReader.py is available here.

A tool for checking sequence variant nomenclature

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The aim of Mutalyzer 2.0, from Leiden University Medical Center (LUMC), is to support checks of sequence variant nomenclature according to the guidelines of the Human Genome Variation Society.

Looking for a great multiple alignment editor?

Try Jalview from the University of Dundee.

"Drag-and-zoom" in the UCSC Genome Browser

There is a nice new feature in the UCSC Genome Browser: It is now possible to position your mouse over a location in the Base Position track, at the top of the browser image and define a zoom range by moving the mouse to a second place within the image. The browser will redraw at the new coordinates when the mouse button is released.