Uniform analysis of coronavirus and SARS-COV-2 nanopore direct RNA sequencing datasets using MasterOfPores
⚠️ This resource has been archived
The processed data described on this site is no longer hosted or available. This project is not being actively maintained.
If you need more information, please contact biocore@crg.eu.
This resource a joint effort, built by the team of the Epitranscriptomics and RNA Dynamics Lab (Novoa Lab) and the Bioinformatics Core Facility (BioCore) at the CRG.
We are very grateful to all researchers who have made their FAST5 raw direct RNA sequencing data available prior to publication, which nurtures this resource.
Goal of this resource
Given the world-wide reach of SARS-COV-2, we aim to facilitate access of the community to uniformly processed SARS-COV-2 nanopore direct RNA sequencing datasets. To this end, we have processed all publicly available dRNAseq datasets of coronavirus and SARS-COV-2 using our workflow MasterOfPores.
Accessing the processed data
The processed data (base-called FAST5, BAM, per-gene counts, RNA modification predictions, polyA tail length estimations) previously linked from the Sample tables on this site is no longer available, as this resource has been archived.
What is MasterOfPores?
MasterOfPores is a Nextflow framework for the analysis of nanopore direct RNA sequencing data.
The MasterOfPores workflow includes all steps needed to process raw FAST5 files produced by Nanopore direct RNA sequencing into mapped BAMS, per-gene counts, polyA tail estimations and RNA modification predictions.
The pipeline currently consists of 3 modules:
- Module 1: NanoPreprocess. Performs base-calling, demultiplexing, quality-filtering, mapping, per-gene/per-transcript counting, mapping and reporting (HTML MultiQC report)
- Module 2: NanoMod. Prediction of RNA modifications
- Module 3: NanoTail. Prediction of polyA tail length estimations
Please see more details about MasterOfPores in our recently published manuscript here.
You can also check MasterOfPores documentation here.