Workshop Description

RNA-seq III  (De Novo Transcriptome Assembly using Trinity) aims to provide an introduction to transcriptome assembly from Illumina RNA-seq reads using Trinity software (

The workshop is centered around hands-on exercises performed by participants with step-by-step instructions, and will facilitate better understanding of the de novo assembly processes and subsequent analysis.

Workshop Materials

Topics covered in the workshop are:

  • Concept of de novo transcriptome assembly and introduction to Trinity
  • Trinity command line and launching the run
  • Post-Assembly Analysis
    • Assessing quality of the assembly
    • Abundance quantification
    • QC Samples and biological replicates
    • Differential expression
    • Coding region identification
    • Functional annotation

Technical Requirements

  • Attendees are required to have a Hoffman2 account. To apply for an account, click here. UCLA participants who lack a faculty sponsor and non-UCLA participants may apply for a temporary Hoffman2 account, requesting sponsorship from Collaboratory Workshops.


Dr. Marina Linardic, Ph.D.



Workshop Details

Prerequisites: Unix, Python
Length: 2 days, 2 hrs per day
Level: Advance
Location: ZOOM
Seats Available: TBD

Fall 2020 Dates