Files in Shians/NanoMethViz

Visualise methylation data from Oxford Nanopore sequencing

.github/ISSUE_TEMPLATE/bug_report.md .github/ISSUE_TEMPLATE/feature_request.md LICENSE.md NEWS.md R/AllGenerics.R R/ModBamResults.R R/NanoMethResults.R R/NanoMethViz-package.R R/RcppExports.R R/assertions.R R/bsseq_to_edger.R R/cluster_reads.R R/cluster_regions.R R/col_specs.R R/convert_methy_format.R R/create_tabix_file.R R/exons_to_genes.R R/filter_methy.R R/get_cgi.R R/get_exons.R R/get_read_entropy.R R/karyogram.R R/lollipop.R R/merge_methy_files.R R/methy_to_bsseq.R R/modbam.R R/modbam_to_tabix.R R/palettes.R R/plot_agg_genes.R R/plot_agg_regions.R R/plot_clustered_reads.R R/plot_gene.R R/plot_gene_annotation.R R/plot_gene_heatmap.R R/plot_grange.R R/plot_heatmap.R R/plot_mds.R R/plot_methylation.R R/plot_pca.R R/plot_region.R R/plot_region_heatmap.R R/plot_violin.R R/query_exons.R R/query_methy.R R/reexport.R R/region_methy_stats.R R/stack_interval.R R/stat_lm.R R/stat_lowess.R R/tabix_utils.R R/themes.R R/utils.R R/utils_expect.R R/zzz.R README.md inst/create_cgi_anno.R man/ModBamFiles-class.Rd man/ModBamFiles.Rd man/ModBamResult-class.Rd man/NanoMethResult-class.Rd man/NanoMethViz-package.Rd man/bsseq_to_edger.Rd man/bsseq_to_log_methy_ratio.Rd man/cluster_reads.Rd man/cluster_regions.Rd man/convert_methy_format.Rd man/create_tabix_file.Rd man/exons-set.Rd man/exons.Rd man/exons_to_genes.Rd man/figures/make_img.R man/filter_methy.Rd man/get_cgi.Rd man/get_example_exons_mus_musculus.Rd man/get_exons.Rd man/get_exons_homo_sapiens.Rd man/get_exons_mus_musculus.Rd man/load_example_modbamresult.Rd man/load_example_nanomethresult.Rd man/methy-set.Rd man/methy.Rd man/methy_col_names.Rd man/methy_to_bsseq.Rd man/methy_to_edger.Rd man/mod_code-set.Rd man/mod_code.Rd man/modbam_to_tabix.Rd man/plot_agg_genes.Rd man/plot_agg_regions.Rd man/plot_gene.Rd man/plot_gene_heatmap.Rd man/plot_grange.Rd man/plot_grange_heatmap.Rd man/plot_mds.Rd man/plot_pca.Rd man/plot_region.Rd man/plot_region_heatmap.Rd man/plot_violin.Rd man/query_exons.Rd man/query_methy.Rd man/raw_methy_to_tabix.Rd man/reexports.Rd man/region_methy_stats.Rd man/samples-set.Rd man/samples.Rd man/sort_methy_file.Rd tests/testthat.R tests/testthat/test-ModBamResults.R tests/testthat/test-NanoMethResults.R tests/testthat/test-bsseq_to_edger.R tests/testthat/test-cluster_reads.R tests/testthat/test-cluster_regions.R tests/testthat/test-filter_methy.R tests/testthat/test-get_cgi.R tests/testthat/test-methy_to_bsseq.R tests/testthat/test-modbam_to_tabix.R tests/testthat/test-plot_agg_genes.R tests/testthat/test-plot_agg_regions.R tests/testthat/test-plot_basic.R tests/testthat/test-plot_gene_heatmap.R tests/testthat/test-plot_mds.R tests/testthat/test-plot_methylation.R tests/testthat/test-plot_pca.R tests/testthat/test-plot_region_heatmap.R tests/testthat/test-query_methy.R tests/testthat/test-region_methy_stats.R tests/testthat/test-stack_interval.R tests/testthat/test-tabix_utils.R tests/testthat/test-utils.R vignettes/UsersGuide.Rmd