Annotate Overlapping Genes¶
This algorithm identifies regions that overlap genes in the selected source.
This algorithm only performs the simple case of whether or not the region overlaps a gene in the annotation source.
Requirements¶
An annotation source to use for annotating the regions.
Output¶
Three column groups will be created. A summary group, which collapses overlapping annotations to produce a clinically relevant annotation. Second, a full annotation which details the interactions for each transcript-region pair. Finally, a set of columns containing the information in the underlying source.
In the first source we provide the following summary fields:
- Gene Names: The gene which overlaps the variant
- # Genes: Number of genes overlapping this region Transcript Name (Clinically Relevant) The transcript determined to be clinically relevant among those found for the variant’s interaction with the gene.
- Overlapping Exons (Clinically Relevant): Which exons of the transcript overlapping this region, or ‘All’ if they all overlap
- % CDS Covered (Clinically Relevant): The percentage of the exon bases covered by the region.
- % Covered (Clinically Relevant): The percentage of the transcript covered by the region.