NextGENe Online Help : NextGENe Viewer : HLA Analysis Project : HLA project report
HLA project report
After you open an HLA analysis project in the NextGENe Viewer, the HLA Show HLA Report option is displayed on the Report Selection icon. Select this option to open the HLA-specific reports and display the project in the HLA project view. From top to bottom, the report has the following three sections: the HLA Summary report, the Allele Matching report, and the Allele Coverage report.
 
Report Section
Description
HLA Summary
The HLA Summary report displays all the called alleles for the sample data as well as summary information for the alleles. If the sample is called as homozygous for the locus, then a pound sign (#) is displayed for the second allele. Double-click any entry in the HLA Summary report to update the display in the HLA project view and the two allele reports accordingly.
Allele Matching report
The Allele Matching report shows the mismatches for the consensus sequence for the sample data compared to the dictionary sequence for the gene and allele pair that is selected in the HLA Summary report. Double-click any position in the report to change the focus of the HLA project view to the selected position.
Allele Coverage report
The Allele Coverage report shows the low coverage positions (as defined in the Filter options in the report) for the gene and allele pair that is selected in the HLA Summary report. The report also show additional information about the alleles such as zygosity. Double-click any position in the report to change the focus of the HLA project view to the selected position.
The HLA report toolbar is interactive. The information that is displayed in the report sections as well as some of the information that is displayed in the panes of the HLA project view is determined by the settings that you have selected for the report. See HLA analysis project report toolbar and HLA Report Settings dialog box.