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Targeted analysis
Serghei Mangul edited this page May 10, 2018
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In case you are only interested in a specific analysis (e.g. immune repertoire profiling) you may use the following options :
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--lowq. Run lost repeat profiling ONLY -
--rdna. Run antibody profiling ONLY -
--reference. Run circular RNA profiling ONLY -
--repeats. Run microbime profiling ONLY -
--circrna. Run microbime profiling ONLY -
--immune. Run microbime profiling ONLY -
--microbiome. Run microbime profiling ONLY
Don’t let your unmapped reads go to waste
- Main
- About ROP Tutorial
- What is ROP?
- How ROP works?
- How to prepare unmapped reads
- How to customize tools used by ROP
- Unix Tutorial
- Get started
- Targeted analysis
- ROP analysis: one RNA-Seq sample
- How to run ROP for mouse
- ROP analysis via qsub
- ROP analysis of multiple samples via qsub array
- Immune profiling by ROP (ImReP)
- ImRep across multiple samples
- ROP input details
- ROP output details
- Source of every last read
- Additional options
- How to calculate immune diversity?
- How to run hyper editing pipeline?