Identification of differential RNA modifications from nanopore direct RNA sequencing

RNA modifications detection from Nanopore dRNA-Seq data

Nanopore direct tRNA sequencing method refinement and RNA modification benchmarking

An awesome Oxford Nanopore Pipeline for direct RNA-sequencing

NanoML-5moU: A Machine Learning framework to detect 5mou modification in IVT direct RNA sequencing data

Convert mpileup format to base count tsv table

Repository for the R package RNAModR

A multiomics approach reveals RNA dynamics promote cellular sensitivity to DNA hypomethylation

An R package for managing, summarizing, and analyzing third-generation methylation sequencing data (.ch3 files). Includes database creation, QC, differential methylation, and visualization tools.

Annotates modomics RNA sequences for easy viewing of RNA modifications and nucleotide positions.

handful of tools that might be needed before or after HAMR

:package: Modstrings: implementation of Biostrings to work with nucleotide sequences containing modified nucleotides.

A bundle of HAMRtools for High-throughput RNA modification prediction and analysis