About Master of Pores 3

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Master of Pores 3 is a collection of pipelines written in Nextflow DSL2 for the analysis of Nanopore data. It can handle reads from direct RNAseq, cDNAseq, DNAseq etc.

The software is composed by four pipelines:

  • mop_preprocess: preprocessing of input data. Basecalling, demultiplexing, alignment, read counts, and more!

  • 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

The name is inspired by Metallica’s Master Of Puppets

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This is a joint project between CRG bioinformatics core and Epitranscriptomics and RNA Dynamics research group.

Reference

If you use this tool, please cite our papers:

“Nanopore Direct RNA Sequencing Data Processing and Analysis Using MasterOfPores” Cozzuto L, Delgado-Tejedor A, Hermoso Pulido T, Novoa EM, Ponomarenko J. N. Methods Mol Biol. 2023;2624:185-205. doi: 10.1007/978-1-0716-2962-8_13.

“MasterOfPores: A Workflow for the Analysis of Oxford Nanopore Direct RNA Sequencing Datasets” Luca Cozzuto, Huanle Liu, Leszek P. Pryszcz, Toni Hermoso Pulido, Anna Delgado-Tejedor, Julia Ponomarenko, Eva Maria Novoa. Front. Genet., 17 March 2020.