Target Region Coverage Analysis

The Target Region Coverage Analysis tool makes it easy to evaluate and compare multiple samples with respect to a given coverage metric. The tool takes as input one or more per-region statistics tracks generated by QC for Targeted Sequencing and outputs a target region track providing statistics across the analyzed samples. In addition, an overlay annotation track (for example a gene track) can be provided to obtain a higher-level summary, where target regions are grouped based on overlap, and coverage statistics are calculated for each group.

The QC for Targeted Sequencing tool is described in http://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=QC_Targeted_Sequencing.html.

Running the tool

To launch Target Region Coverage Analysis, go to:

        Toolbox | Quality Control (Image quality_control_closed_16_h_p) | Target Region Coverage Analysis (Image target_region_coverage_16_h_p)

In the first dialog (figure 24.22), select one or more per-region statistic tracks (Image annotation_track_16_n_p) produced by QC for Targeted Sequencing. The tracks must be based on the same target region track.

Image targetregioncoverageanalysisstep1
Figure 24.22: Select one or more per-region statistics tracks.

The next dialog allows you to configure the settings for this tool, as shown in figure 24.23 and described below.

Image targetregioncoverageanalysisstep2
Figure 24.23: Settings of the Target Region Coverage Analysis tool.



Subsections