Home - Linlab-slu/TSSr GitHub Wiki

Welcome to the TSSr wiki! We will introduce some preparatory steps for your data before importing it into TSSr!

TSSHub constructors’ handbook

1. Find or build a BSgenome package

• 1.1 How to find or build a BSgenome package for your species

2. Raw data quality control and rRNA removal(TBA)

• 2.1 Generate quality report(TBA)
• 2.2 Quality control(TBA)
• 2.3 rRNA removal(TBA)
• (optional) barcode / linker / adapter removal(TBA)

3. Mapping

• 3.1 Mapping reads to genome with STAR (Recommend)
• 3.2 Mapping reads to genome with hisat2 (Try STAR first please 😄 )

4. Real-world examples to run TSSr

5. Benchmark

• Pombe

FAQ

If you have questions, please refer to FAQ first to check if your question already be answered or not. If not, please pose your question in Issues.