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Dynamic report generation for IIPGA resequencing data

Many different ways of looking at the IIPGA resequencing data are available for each gene, but the defaults chosen for these reports may not suit everyone’s needs. The dynamic report generator allows you to customise many of the reports with a wide range of options. The report generator has many options which make it appear complicated, but once you understand the basic ideas, it will be easy to make reports which suit your specific needs.

The report configuration page is divided up into five sections and you should choose options from each section to create the report you need.

First, choose the gene to report. You may choose any of the gene names on the drop-down list. Click on the gene name box to see the available choices, scrolling as needed to find the one you want. Click on the desired gene.

Second, choose the type of report to prepare. Click on the report type box and choose the report you need. All of the report names correspond to the types of standard report available for each gene elsewhere on the site and should be reasonably self explanatory – if not, try them to see what they produce!

Third, choose the way you want the report to be presented to you. “Web page” will display the report on your browser screen. “Text file” will display a simplified layout which has no HTML or other mark up symbols, suitable for downloading. “Spreadsheet” will return a “tab delimited” file which most spreadsheet programs can read – this format is very useful for transferring SNP data into other programs or for tables.

Fourth, select the population samples to include. Unlike the other selections, you may choose one or more from the population drop down list. Hold down the “Ctrl” key while clicking to select more than one sample name. Samples which are not highlighted will be excluded from your report, so a report containing only European or only African American data can be made.

Fifth, change the “rare allele frequency” to suit your needs. For example, for a report limited to SNP with rare allele frequency of 5% or more, type 0.05 into this box. Note that reports always include all SNP which reach the specified rare allele frequency in any one or more of the included samples, so if you have more than one population sample included (see the Fourth step above), you may see SNP below the specified rare allele frequency in some populations. If you want every SNP to be included, leave the default value of 0.

Finally, click on the “Generate” button at the top of the page to generate the report you have constructed.