Tutorials

Tutorials:

• Setup and Data Preparation
  • Reference Genome and Annotation
  • ENCODE long read data
  • Alignment
  • Demonstration Data
• Command Line Interface (CLI)
• Transcriptome Reconstruction
  • Import of reference annotation
  • Import of sequencing data
• Saturation analysis
• Quality control and sequencing artifacts
• Data access and Filtering
  • Access genes by name or id
  • Iterating genes and transcripts
  • Filtering tags and queries
  • Custom Tags
  • Filter Queries
• File Export
• Alternative splicing events
  • PCA plots
• Differential Splicing
  • Statistical test for differential splicing
  • Depicting differential splicing results
  • Splicing coordination
  • Differential Isoform Expression
• Protein Domains
  • Add annotation based domains.
  • Plot the domain structure of genes
  • Annotate tables with domains
• PacBio 2019 Alzheimer Sequel2 dataset
  • Preparation
  • Data import
  • Saturation Anlalysis
  • Quality control and filtering
  • Novel alternative splicing classification
  • Data exploration
  • Data vizualization
• ENCODE Long Read Sequel2 dataset
  • Preparation
  • Data import
  • Saturation Anlalysis
  • Quality control and filtering
  • Data exploration
  • Novel alternative splicing classification
  • Differential splicing