This content is Free Access.
Chapters
- 00:05Title
- 01:03Set Up the Project, Upload Raw Sequencing Reads, and Assess Reads Using FastQC
- 03:31Trim and Quality Filter Raw Reads to Yield High Quality Sequence
- 04:32De Novo Transcriptome Assembly Using Trinity in Atmosphere
- 06:42Pairwise Differential Expression Using DESeq2 in the DE
- 07:38Results: FastQC and rnaQUAST Reports
- 09:24Conclusion
This protocol outlines a comparative de novo transcriptome assembly and annotation workflow for novice bioinformaticians. The workflow is available for free entirely through CyVerse and connected by the Data Store. Command line and graphical user interfaces are used, but all code needed is available to copy and paste.
