Workflow diagram describing generation of assembled transcripts from RNAseq data. Data from a single treatment with different replicates (1,2,3,4) merged together and assembled with Cufflink using 2 different options: a. With a reference annotation file (with GTF) b. Without a reference annotation file (without GTF). With-GTF only provides assembly where annotations are available whereas without-GTF provides extra annotation information. Outputs from these 2 options are merged and stored in the database.
Tripathy et al. BMC Genomics 2012 13:303 doi:10.1186/1471-2164-13-303