DeepMod2 is a computational tool for detecting DNA methylation and modifications from Oxford Nanopore reads. It uses a BiLSTM model to predict per-read and per-site 5mC methylations for CpG sites. DeepMod2 can call methylation from FAST5 files basecalled with Guppy or resquiggled with Tombo.
DeepMod2 is distributed under the MIT License by Wang Genomics Lab.
Please refer to Installation for how to install DeepMod2.
Please refer to Usage for how to use DeepMod2.
Please refer to Example detailed instructions on how to run DeepMod2 on both Guppy and Tombo data.