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_pkgdown.yml
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url: https://shians.github.io/NanoMethViz/
template:
bootstrap: 5
reference:
- title: Package
contents:
- NanoMethViz-package
- title: Plotting Regions
contents:
- plot_gene
- plot_gene_heatmap
- plot_region
- plot_region_heatmap
- plot_grange
- plot_grange_heatmap
- title: Other Plots
contents:
- plot_agg_genes
- plot_agg_regions
- plot_mds
- plot_pca
- plot_violin
- title: Feature Annotations
contents:
- get_exons_grcm39
- get_exons_hg19
- get_exons_hg38
- get_exons_homo_sapiens
- get_exons_mm10
- get_exons_mus_musculus
- exons_to_genes
- get_cgi_grcm39
- get_cgi_hg19
- get_cgi_hg38
- get_cgi_mm10
- title: Conversion
contents:
- bsseq_to_edger
- bsseq_to_log_methy_ratio
- methy_to_bsseq
- methy_to_edger
- modbam_to_tabix
- title: Querying Methylation Data
contents:
- query_methy
- filter_methy
- title: Data Objects
contents:
- NanoMethResult
- ModBamResult
- ModBamFiles
- ModBamFiles-class
- methy
- samples
- exons
- query_exons
- create_tabix_file
- title: Example Data
contents:
- load_example_modbamresult
- load_example_nanomethresult
- get_example_exons_mus_musculus
- title: Miscallaneous
contents:
- region_methy_stats
- cluster_regions
- cluster_reads
- methy_col_names