Welcome to YASIM Documentation

This contains documentation for YASIM Users.

Contents:

• YASIM – Yet Another SIMulator for Alternative Splicing Events and Realistic Gene Expression Profile
  • Installation
• Command-Line Interfaces
  • yasim
  • yasim_scripts
• Quickstart
  • YASIM Data Flow Diagram
  • Step 0. Retrieve Reference Genome Sequence and Annotation
  • Step 1. Generation of AS Events
  • Step 2. Generate Sequencing Depth of Gene
  • Step 3. Generate Sequencing Depth of Isoform
  • Step 4. Transcribe GTF to FASTA
  • Step 5. Invocation of LLRGs: Use PBSIM version 3 for Example
• Tutorial
  • Tutorial on LLRGs
  • Using PacBio IsoSeq Pipelines
• FAQs
  • Experimental Design
  • Guide to Parameters
  • Compatibility
• NEWS
  • Version 3.X
  • Unsorted
• Copyright
• License
  • MIT No Attribution License
  • CC0 1.0 Universal
  • GNU GENERAL PUBLIC LICENSE

• Index

• Module Index

• Search Page