The schema for the cross-platform transcriptome analysis. The figure shows how cross-platform transcriptome analysis is carried out. The box within the dashed lines highlights the steps carried out by the CPTRA software package. Basically, the long read sequences are first annotated with blast-based method and then serves as the input for the software. The tag-based sequencing data is another type of input data. The output includes the annotated tags with quantification indicating the level of gene expression and the ontology information.