Welcome to the documentation of Master Of Pores 4

Master of Pores is a pipeline written in Nextflow DSL2 for the analysis of Nanopore data. It can handle reads from direct RNAseq, cDNAseq, DNAseq etc.

The package is composed by four pipelines:

• mop_preprocess: preprocessing

• mop_mod: detecting chemical modifications. It reads the output directly from mop_preprocess

• mop_tail: estimating polyA tail size. It reads the output directly from mop_preprocess

• mop_consensus: it generates a consensus from the predictions from mop_mod. It reads the output directly from mop_mod

Contents:

• About Master of Pores 4
• Get Started
• MOP_PREPROCESS
• MOP_MOD
• MOP_CONSENSUS
• MOP_DNA
• MOP_UTILS
• Resource reporting
• CHANGELOG
• Continuous integration
• Troubleshooting