Types of reports generated in GenomeStudio

Types of reports that can be generated in GenomeStudio:

A. Final Report: contains information on the allele calls of the samples.

Note: There is an option to select the field/statistic to include in the report.

Table 1. Description of Headers available in a Final Report.

Figure 1. Final Report Sample.

B. DNA Report: contains the summary statistics for each sample.

Table 2. Description of Headers in a DNA Report.

Figure 2. DNA Report Sample.

C. Locus Summary Report: contains details for each locus.

Table 3. Description of Headers in a Locus Summary Report.

Figure 3. Locus Summary Report Sample.

D. Locus x DNA Report: contains details for each locus for each sample.

Table 4. Description of Headers in a Locus x DNA Report.

Figure 4. Locus x DNA Report Sample.

E. Custom Reports: requires the installation of Genome Studio 2.0 Plug-ins before these can be created. GenomeStudio Report Plug-ins create custom reports for downstream analysis software.* PLINK Input report Plug-in

Output files for input into the PLINK software (.bat, .map, .ped, .phenotype, .script).

• CNV Region Report

Requires running cnvPartition Plug-in prior to generating reports. Output is three types of reports.

1. Standard Report: lists each copy number variation and loss of heterozygosity (LOH) region for each sample.

1. Allele-Specific Copy Number Report: reports copy number-informed genotypes such as A- and ABB.

1. PLINK CNV Input Report: creates input files for PLINK CNV Analysis Software.

The step-by-step guide on how to generate a report in Genome Studio is described in the GenomeStudio Genotyping Module v2.0 User Guide.