Package index • scrattch.vis

All functions
`add_group_xpos()`	Adda per-group xpos column for sample data based on grouping
`add_sample_xpos()`	Add a per-sample xpos column for sample data based on grouping
`build_header_labels()`	Build colorful, rectangular labels for plot headers in plot space
`build_header_polygons()`	Build polygons from plot data for fancy headers built into the plot area
`build_max_dfs()`	Build data.frames for maximum value positions in plot space
`build_river_plot()`	Build river plots for annotations
`build_river_plot_bokeh()`	River plot bokeh
`build_vec_pos()`	Build plot positions for a character vector
`check_db_structure()`	Check Database structure
`check_feather_structure()`	Check Feather Directory structure
`check_genes()`	Check input genes against a vector of gene names
`check_list_structure()`	Check List structure
`chr_to_num()`	Evaluate a character string specifying integer values to a numeric vector
`color_sum()`	Mix two colors additively in RGB space
`data_df_to_colors()`	Convert expression data to heatmap colors for plotting
`db_to_list()`	Read a SQLite database into a list
`dend_anno_barplot()`	dend_anno_barplot
`dend_anno_dotplot()`	dend_anno_dotplot
`erf()`	Simple error function
`filter_gene_data()`	Filter gene data based on annotations, genes, and groups supplied with group_order.
`filter_using_list()`	Filter a data.frame with parameters provided in a list
`get_list_data()`	Format data provided in list format for scrattch plots
`get_n_stats()`	Compute basic count statistics for use in generating plots
`get_sparse_pairwise_deg()`	Find sparse, differentially-expressed genes in pairwise comparisons
`ggplot_header_labels()`	Add header labels objects to a ggplot
`ggplot_max_vals()`	Add max value labels to a ggplot
`ggplot_scale_bars()`	Add scale bar objects to a ggplot
`group_box_plot()`	Box Plots plots of gene expression for grouped samples
`group_columns()`	Generate a list of anno columns based on grouping
`group_dot_plot()`	Dot-plot Heatmap plots of group summary statistics
`group_heatmap_plot()`	Heatmap plots of group summary statistics
`group_quasirandom_plot()`	Quasirandom jittered plots of gene expression for grouped samples
`group_stats()`	Compute stats for samples grouped by one or more annotations
`group_violin_plot()`	Violin plots of gene expression for grouped samples
`hclust_to_seg()`	Covert hclust objects to segments for use in ggplots
`heatmap_legend_plot()`	Build a heatmap legend plot
`make_group_links()`	Make group links
`make_group_nodes()`	Make group nodes for categorical data
`make_plot_links()`	Generate links in plot space between nodes for a river plot
`make_plot_nodes()`	Make plot nodes
`mat_to_data_df()`	Convert a matrix to a data.frame for plotting
`max_gene_vals()`	Compute maximum expression values in data for a set of genes.
`melt_data_df()`	Melt a data_df to prepare for plot parameters
`point_size_legend_plot()`	Build a point size legend plot
`prop_gt0()`	Compute the proportion/fraction of values > 0 in a numeric vector
`prop_gt1()`	Compute the proportion/fraction of values > 1 in a numeric vector
`pt2mm()`	Convert font sizes in pt to mm
`riken_case()`	Convert the case of Riken genes no matter input case
`sample_bar_plot()`	Barplots of gene expression of individual samples
`sample_fire_plot()`	Fire Heatmaps of gene expression for individual samples
`sample_heatmap_plot()`	Heatmaps of gene expression for individual samples
`scale_gene_data()`	Scale gene data columns
`scale_values_plot_space()`	Scale values to plot space
`sci_label()`	Convert integers to scientific notation labels
`sigline()`	Build a sigmoidal line using sigfun
`sigribbon()`	Expand a sigmoidal line to a ribbon by adding ymin
`spiral_jitter()`	Jitter x-y coordinates in a spiral pattern
`split_text()`	Split a character string by commas, spaces, tabs, and line breaks into a character vector
`text_stat()`	Compute statistics for a numeric vector, selected with a simple text string
`theme_no_x()`	Remove the X-axis (and most other margins)
`title_case()`	Convert the case of objects in a character vector to Title Case
`tmean()`	Compute Trimmed Mean of a numeric vector
`update_scrattch()`	Pull the current version of scrattch from GitHub
`values_to_colors()`	Convert values to colors along a color ramp
`write_database()`	Write SQLite3 Database

Reference

All functions