Make Plots for Genomic Analysis of Mature B-cell Lymphomas in R

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Documentation for package ‘GAMBLR.viz’ version 1.1.1

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ashm_multi_rainbow_plot ASHM Multi-panel Rainbow Plot
ashm_rainbow_plot ASHM Rainbow Plot
categorize_CN_events Categorize arm-level and chromosomal CNV events
circular_CN_plot Circular overview of copy number data across a cohort
comp_report sample-level SV/SSM/CN reports in PDF
copy_number_vaf_plot CN VAF Plot
fancy_alignment_plot Plot Alignment Metrics
fancy_circos_plot SSM and SV Circos Plot.
fancy_cnbar Copy Number states barplot
fancy_ideogram genome-wide ideogram annotated with SSM and CN information
fancy_multisamp_ideogram Genome-wide ideogram (CN segments) for multiple samples.
fancy_propcov_plot Proportional Coverage Plot.
fancy_proportions_plot Proportional Metrics Plot.
fancy_qc_plot Plot Quality Control Metrics.
fancy_snv_chrdistplot n SNVs per chromosome plot
fancy_sv_sizedens Structural Variants Size Plot.
fancy_v_chrcount n variants per chromosome plot.
fancy_v_count Total n variants count plot.
fancy_v_sizedis Variant size distribution plot
focal_cn_plot Copy Number Segments Plot
heatmap_mutation_frequency_bin Heatmap of mutation counts across sliding windows for multiple regions.
map_metadata_to_colours Assign a colour palette to metadata columns automatically and consistently.
plot_sample_circos Sample-level Circos Plot
prettyChromoplot Chromosome Plot
prettyCoOncoplot Side-by-side Oncoplots
prettyForestPlot Forest Plot.
prettyGeneCloud Gene Cloud Plot
prettyOncoplot PrettyOncoplot
prettyRainfallPlot Rainfall Plot
pretty_circular_mutation_frequency_heatmap pretty_circular_mutation_frequency_heatmap
pretty_CN_heatmap Pretty Copy Number Heatmap
pretty_lollipop_plot Pretty Lollipop Plot.
splendidHeatmap Heatmap