3 Tutorials

This chapter provides step-by-step tutorials demonstrating the use of hespresso with real RNA-Seq datasets from diverse allopolyploids, including allotetraploid, allohexaploid, and allotriploid. Workflows cover data preparation, normalization, and statistical testing with HOBIT or HomeoRoq, illustrating practical strategies to detect shifts in homeolog expression ratios across developmental stages, stress treatments, and ecological habitats.