Iterated Function System free download, Iterated Function System download on software download

Easily visualize large genomes Iterated Function System is a free and easy to use tool for visualization of large genomes by Chaos Game Representation CGR (Jeffrey 1990). CGR transforms DNA sequence to the colored image (figure on the right). Every pixel corresponds to a short sequence of n symbols called n-mer. Color of pixel reflects n-mer frequency in the analyzed sequence.The main parameter of visualisation, i.e. region in genome employed in visualisation is controlled by slider in the top of the window. User can specify region directly by entering start position and length, or using slider control to move region swiftly through the genome. Actual position and length of region is displayed in slider control as a red bar with corresponding size.GENEBANK format might include specification of genomic features such as genes, mRNA, etc. These are extracted from input file and listed in the Features part of window. After a user selects feature its description is displayed in the right part. The Visualise button can be used to visualise selected feature immediately. This allows us easily analyse important parts of genome simply by a single click.Remaining parameters of visualisation are listed in section Visualisation settings. Colour range, i.e. transformation of oligomer frequency to colour heatmap can be adjusted. Minimum value is shown in blue and maximum in red colour. When automatic adjustment of colour range is chosen, maximum value is always recalculated to display the most frequent oligomer in red colour. Highlighting of oligomers with low and high frequency simultaneously can be achieved by logarithmic scale of colour heatmap, i.e. log(count) is applied to counter value.

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