Genome annotation of transcriptome diversity. (A) Benefits and challenges of annotating the transcriptome diversity revealed by long-read sequencing methods. Challenges include storage, interpretation, and visualization of vast amounts of transcripts and are outweighed by the benefits of using a comprehensive reference for accurate gene quantification, transcript reconstruction, and function discovery among others. (B) Redefining the annotation paradigms. Defining haplotype-specific pantranscriptomes aligns with current pangenome efforts to describe genome diversity. Extensive metadata annotation of the wealth of data provided by LRS allows inclusion and reference customization via subsetting to accommodate diverse analysis scenarios.
