Identify mutated genes
The Identify Mutated Genes tool can be used if you would like to identify only variants that fall within genes. This is done by comparing a gene track with a variant track holding the variants (mutations) of interest. The variant track is used as an overlap filter for filtering the gene track based on overlap with the variant track.
To run the tool:
Toolbox | Identify Candidate Genes (
) | Identify Mutated Genes (
)
Select the gene track you wish to filter and click on the button labeled Next (see figure 28.5).
Figure 28.5: Select the variant track to be used for comparison.
Next, select the variant track that should be used for comparison. An overlap has a simple definition - if the annotation used as input has at least one shared position with the other track, there is an overlap. The boundaries of the annotations do not need to match.