methyrep: code for methylation in repeat pairs.
__pipeline_bismark__: code for bisulfite sequencing data analyzed by Bismark.
public_data_test: code for evaluation of B. nigra.
stats_c_count: code for counting detected cytosines.
__stats_correlation_with_bisulfite__: code for evaluation of DeepSignal-plant against bisulfite sequencing.
__stats_high_confidence_kmers/sites__: code for analysis of high confidence kmers/sites.
stats_nanopore_only_cytosines_profiling: code for analysis of cytosines detected by Nanopore only.
__stats_nanoporeseq__: code for analysis of Nanopore data.
tools_to_cmp: code for comparison with other tools.
__correlation_with_bs.cal_plot.general.R__: R script for comparison of Nanopore-based tools and bisulfite sequencing.