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Bioinformatics Software: CLC Genomics Workbench

General Information

USC Libraries Bioinformatics Service is very pleased to host a one-day training event for CLC Genomics Workbench and the Microbial Modules.

Major Topics:​

  • DNA-seq Analysis
    • Reads mapping
    • Variant calling and annotation
  • ChIP-seq Analysis
    • Reads mapping
    • Peak calling and annotation
  • Microbial Analysis
    • OTU clustering
    • Alpha and beta diversity analysis
  • Metagenomics analysis
    • Metagenome assembly
    • Functional profiling

Time: Tuesday, October 17th, 2017

Place: Learning Center, Wilson Dental Library (DEN21), UPC

Training Agenda

Tuesday, October 17th, 2017
Learning Center, Wilson Dental Library (DEN21), UPC

 

8:30am: Coffee/snacks provided by USC Libraries

9:00am – 10:00am: CLC Genomics Workbench: Overview of Applications

10:00am – 12:00pm: Live demonstration of ChIP-seq and DNA-seq workflows

  • Data import
  • Map reads to reference
  • Peak calling and annotation
  • Variant calling, annotation, filtering and comparison

12:00pm – 1:00pm: Lunch provided by QIAGEN

1:00pm – 1:30pm: Overview of the Microbial Genomics/Metagenomics Applications in the CLC Genomics Workbench

1:30pm – 3:30pm: Amplicon-Based OTU Clustering (Hands-on Training)

  • From raw reads to interactive visualization
  • De novo or reference based OTU-clustering
  • Microbial community sample and species level statistics (alpha and beta diversities)

3:30pm – 4:30pm: Whole Metagenome Functional Analysis (Hands-on Training)

  • Assembly of metagenomes
  • Investigation of the functional composition and diversity of microbial communities

Training Materials

Follow the instruction below to download and install CLC Gx software on your laptop before the onsite training.  You will enjoy FREE full license of the software till Nov. 1, 2017.