.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
NEWS.md
R/JamPolygon.R
R/Venndir-class.R
R/venndir-angles.R
R/venndir-base-polyclip.R
R/venndir-conversion.R
R/venndir-curate.R
R/venndir-expand-range.R
R/venndir-grob-assembly.R
R/venndir-im.R
R/venndir-label-fill-jp.R
R/venndir-label-outside-jp.R
R/venndir-label-style.R
R/venndir-labels.R
R/venndir-legend.R
R/venndir-meme.R
R/venndir-nudge-label.R
R/venndir-overlap.R
R/venndir-plotly.R
R/venndir-polyclip.R
R/venndir-printcolordf.R
R/venndir-render-jp.R
R/venndir-reposition-labels.R
R/venndir-shapes.R
R/venndir-shrinkdf.R
R/venndir-test.R
R/venndir-textvenn.R
R/venndir-to-df.R
R/venndir-utilities.R
README.Rmd
README.md
TODO.md
_pkgdown.yml
docs/.DS_Store
docs/404.html
docs/LICENSE-text.html
docs/LICENSE.html
docs/TODO.html
docs/articles/index.html
docs/articles/venndir_gene_expression.html
docs/articles/venndir_gene_expression_files/figure-html/generic_1-1.png
docs/articles/venndir_gene_expression_files/figure-html/limma_3-1.png
docs/articles/venndir_gene_expression_files/figure-html/limma_3p-1.png
docs/articles/venndir_gene_expression_files/figure-html/limma_4-1.png
docs/articles/venndir_gene_expression_files/figure-html/limma_5-1.png
docs/articles/venndir_gene_expression_files/figure-html/limma_6-1.png
docs/articles/venndir_gene_expression_files/figure-html/limma_6s-1.png
docs/articles/venndir_gene_expression_files/figure-html/limma_7-1.png
docs/articles/venndir_gene_expression_files/figure-html/limma_8-1.png
docs/articles/venndir_gene_expression_files/header-attrs-2.1/header-attrs.js
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/label_positioning_logic.html
docs/link.svg
docs/news/index.html
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/polyclip_notes.html
docs/reference/JamPolygon-class.html
docs/reference/JamPolygon-methods-1.png
docs/reference/JamPolygon-methods-2.png
docs/reference/JamPolygon-methods.html
docs/reference/Rplot001.png
docs/reference/Rplot002.png
docs/reference/Rplot003.png
docs/reference/Rplot004.png
docs/reference/Rplot005.png
docs/reference/Rplot006.png
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docs/reference/Rplot011.png
docs/reference/Rplot012.png
docs/reference/Rplot013.png
docs/reference/Rplot014.png
docs/reference/Rplot015.png
docs/reference/Venndir-class.html
docs/reference/add_orientation_JamPolygon-1.png
docs/reference/add_orientation_JamPolygon.html
docs/reference/area_JamPolygon-1.png
docs/reference/area_JamPolygon-2.png
docs/reference/area_JamPolygon.html
docs/reference/bbox_JamPolygon.html
docs/reference/bbox_polygon_list.html
docs/reference/buffer_JamPolygon-1.png
docs/reference/buffer_JamPolygon-2.png
docs/reference/buffer_JamPolygon.html
docs/reference/check_JamPolygon.html
docs/reference/check_Venndir.html
docs/reference/counts2setlist-1.png
docs/reference/counts2setlist-2.png
docs/reference/counts2setlist.html
docs/reference/curate_venn_labels.html
docs/reference/degrees_to_adj-1.png
docs/reference/degrees_to_adj.html
docs/reference/diff_degrees.html
docs/reference/display_angles.html
docs/reference/draw_gridtext_groups.html
docs/reference/eulerr2polys.html
docs/reference/eulerr_to_JamPolygon.html
docs/reference/eulerr_to_polygon_list.html
docs/reference/expand_range.html
docs/reference/farthest_point_JamPolygon.html
docs/reference/figures/README-label_preset_1-1.png
docs/reference/figures/README-label_preset_1l-1.png
docs/reference/figures/README-label_style_1-1.png
docs/reference/figures/README-nudge_1-1.png
docs/reference/figures/README-nudge_2-1.png
docs/reference/figures/README-venn_1-1.png
docs/reference/figures/README-venn_1e-1.png
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docs/reference/figures/README-venndir_each_p-1.png
docs/reference/figures/README-venndir_each_p2-1.png
docs/reference/figures/README-venndir_overlap-1.png
docs/reference/figures/README-venndir_overlap_p-1.png
docs/reference/figures/README-venndir_overlap_p2-1.png
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docs/reference/figures/README-vennitems_2p-1.png
docs/reference/find_venn_overlaps_JamPolygon-1.png
docs/reference/find_venn_overlaps_JamPolygon-2.png
docs/reference/find_venn_overlaps_JamPolygon.html
docs/reference/find_vennpoly_overlaps-1.png
docs/reference/find_vennpoly_overlaps.html
docs/reference/get_largest_polygon-1.png
docs/reference/get_largest_polygon.html
docs/reference/get_largest_polygon_list-1.png
docs/reference/get_largest_polygon_list.html
docs/reference/get_sp_buffer-1.png
docs/reference/get_sp_buffer-2.png
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docs/reference/get_sp_buffer-4.png
docs/reference/get_sp_buffer-5.png
docs/reference/get_sp_buffer.html
docs/reference/get_venn_polygon_shapes-1.png
docs/reference/get_venn_polygon_shapes-2.png
docs/reference/get_venn_polygon_shapes.html
docs/reference/get_venn_shapes.html
docs/reference/gridtext_make_outer_box.html
docs/reference/gridtext_richtext_grob.html
docs/reference/grobs_exts.html
docs/reference/grobs_stack-1.png
docs/reference/grobs_stack.html
docs/reference/grobs_tile-1.png
docs/reference/grobs_tile.html
docs/reference/grobs_xalign-1.png
docs/reference/grobs_xalign.html
docs/reference/grobs_yalign-1.png
docs/reference/grobs_yalign.html
docs/reference/has_point_in_JamPolygon.html
docs/reference/im2list.html
docs/reference/im_value2list.html
docs/reference/index.html
docs/reference/intersect_JamPolygon.html
docs/reference/intersect_polygon_list-1.png
docs/reference/intersect_polygon_list.html
docs/reference/intersect_polygons-1.png
docs/reference/intersect_polygons.html
docs/reference/label_fill_JamPolygon-1.png
docs/reference/label_fill_JamPolygon-2.png
docs/reference/label_fill_JamPolygon.html
docs/reference/label_outside_JamPolygon.html
docs/reference/label_segment_JamPolygon.html
docs/reference/labelr_JamPolygon.html
docs/reference/labelr_polygon_list-1.png
docs/reference/labelr_polygon_list-2.png
docs/reference/labelr_polygon_list.html
docs/reference/list2im_opt.html
docs/reference/list2im_signed.html
docs/reference/list2im_value.html
docs/reference/make_color_contrast-1.png
docs/reference/make_color_contrast-2.png
docs/reference/make_color_contrast-3.png
docs/reference/make_color_contrast-4.png
docs/reference/make_color_contrast.html
docs/reference/make_venn_combn_df.html
docs/reference/make_venn_test.html
docs/reference/match_list.html
docs/reference/mean_degree_arc-1.png
docs/reference/mean_degree_arc-2.png
docs/reference/mean_degree_arc-3.png
docs/reference/mean_degree_arc-4.png
docs/reference/mean_degree_arc-5.png
docs/reference/mean_degree_arc-6.png
docs/reference/mean_degree_arc.html
docs/reference/mean_degrees.html
docs/reference/minus_JamPolygon.html
docs/reference/minus_polygon_list-1.png
docs/reference/minus_polygon_list.html
docs/reference/nearest_point_JamPolygon.html
docs/reference/nudge_JamPolygon-1.png
docs/reference/nudge_JamPolygon-2.png
docs/reference/nudge_JamPolygon-3.png
docs/reference/nudge_JamPolygon.html
docs/reference/nudge_polygon_coords-1.png
docs/reference/nudge_polygon_coords.html
docs/reference/nudge_polygon_list-1.png
docs/reference/nudge_polygon_list-2.png
docs/reference/nudge_polygon_list-3.png
docs/reference/nudge_polygon_list.html
docs/reference/nudge_sp-1.png
docs/reference/nudge_sp-2.png
docs/reference/nudge_sp.html
docs/reference/nudge_venndir_label-1.png
docs/reference/nudge_venndir_label-2.png
docs/reference/nudge_venndir_label-3.png
docs/reference/nudge_venndir_label.html
docs/reference/overlaplist2setlist-1.png
docs/reference/overlaplist2setlist-2.png
docs/reference/overlaplist2setlist.html
docs/reference/plot-JamPolygon-missing-method-1.png
docs/reference/plot-JamPolygon-missing-method-2.png
docs/reference/plot-JamPolygon-missing-method.html
docs/reference/plot.JamPolygon-1.png
docs/reference/plot.JamPolygon-2.png
docs/reference/plot.JamPolygon-3.png
docs/reference/plot.JamPolygon.html
docs/reference/plot_polygon_list-1.png
docs/reference/plot_polygon_list-2.png
docs/reference/plot_polygon_list.html
docs/reference/point_in_JamPolygon.html
docs/reference/polyclip_to_JamPolygon.html
docs/reference/polygon_areas.html
docs/reference/polygon_circles-1.png
docs/reference/polygon_circles.html
docs/reference/polygon_ellipses-1.png
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docs/reference/polygon_label_fill-1.png
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docs/reference/polygon_label_fill-3.png
docs/reference/polygon_label_fill-4.png
docs/reference/polygon_label_fill-5.png
docs/reference/polygon_label_fill-6.png
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docs/reference/polygon_label_outside-1.png
docs/reference/polygon_label_outside-10.png
docs/reference/polygon_label_outside-11.png
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docs/reference/polygon_label_outside-8.png
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docs/reference/polygon_label_segment.html
docs/reference/polygon_list_labelr-1.png
docs/reference/polygon_list_labelr-2.png
docs/reference/polygon_list_labelr-3.png
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docs/reference/polygon_list_to_xy_list.html
docs/reference/print_color_df.html
docs/reference/render_venndir-1.png
docs/reference/render_venndir-10.png
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docs/reference/render_venndir.html
docs/reference/reposition_venn_gridtext_labels.html
docs/reference/rescale_coordinates-1.png
docs/reference/rescale_coordinates-2.png
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docs/reference/rescale_coordinates-4.png
docs/reference/rescale_coordinates.html
docs/reference/rescale_p.html
docs/reference/rescale_polygon_list-1.png
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docs/reference/rescale_polygon_list.html
docs/reference/rescale_ps.html
docs/reference/rescale_sp-1.png
docs/reference/rescale_sp-2.png
docs/reference/rescale_sp.html
docs/reference/sample_JamPolygon-1.png
docs/reference/sample_JamPolygon-2.png
docs/reference/sample_JamPolygon-3.png
docs/reference/sample_JamPolygon-4.png
docs/reference/sample_JamPolygon.html
docs/reference/shrink_df.html
docs/reference/signed_counts2setlist-1.png
docs/reference/signed_counts2setlist-2.png
docs/reference/signed_counts2setlist-3.png
docs/reference/signed_counts2setlist.html
docs/reference/signed_overlaps.html
docs/reference/simple_ellipse.html
docs/reference/sp_circles-1.png
docs/reference/sp_circles.html
docs/reference/sp_ellipses-1.png
docs/reference/sp_ellipses.html
docs/reference/sp_percent_area.html
docs/reference/sp_polylabelr-1.png
docs/reference/sp_polylabelr-2.png
docs/reference/sp_polylabelr.html
docs/reference/split_JamPolygon.html
docs/reference/spread_degrees.html
docs/reference/textvenn.html
docs/reference/three_point_angle.html
docs/reference/to_basic.GeomRichText.html
docs/reference/to_basic.GeomTextBox.html
docs/reference/union_JamPolygon-1.png
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docs/reference/venn_meme-1.png
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docs/reference/venndir-8.png
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docs/reference/venndir.html
docs/reference/venndir_label_style.html
docs/reference/venndir_legend-1.png
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docs/reference/venndir_to_df-1.png
docs/reference/venndir_to_df.html
docs/reference/xy_list_to_coord_list-1.png
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docs/reference/xy_list_to_polygon_list.html
docs/sitemap.xml
docs/venndir_todo.html
docs/venndir_workflow.html
man/.DS_Store
man/JamPolygon-class.Rd
man/JamPolygon-methods.Rd
man/Venndir-class.Rd
man/add_orientation_JamPolygon.Rd
man/area_JamPolygon.Rd
man/bbox_JamPolygon.Rd
man/buffer_JamPolygon.Rd
man/check_JamPolygon.Rd
man/check_Venndir.Rd
man/counts2setlist.Rd
man/curate_venn_labels.Rd
man/degrees_to_adj.Rd
man/diff_degrees.Rd
man/display_angles.Rd
man/draw_gridtext_groups.Rd
man/eulerr_to_JamPolygon.Rd
man/expand_range.Rd
man/farthest_point_JamPolygon.Rd
man/figures/README-label_preset_1-1.png
man/figures/README-label_preset_1l-1.png
man/figures/README-label_style_1-1.png
man/figures/README-nudge_1-1.png
man/figures/README-nudge_2-1.png
man/figures/README-venn_1-1.png
man/figures/README-venn_1e-1.png
man/figures/README-venn_1g-1.png
man/figures/README-venn_1l-1.png
man/figures/README-venn_intro-1.png
man/figures/README-venndir_1-1.png
man/figures/README-venndir_agreement-1.png
man/figures/README-venndir_each-1.png
man/figures/README-venndir_each_p-1.png
man/figures/README-venndir_each_p2-1.png
man/figures/README-venndir_overlap-1.png
man/figures/README-venndir_overlap_p-1.png
man/figures/README-venndir_overlap_p2-1.png
man/figures/README-vennitems_1-1.png
man/figures/README-vennitems_1p-1.png
man/figures/README-vennitems_2-1.png
man/figures/README-vennitems_2p-1.png
man/find_venn_overlaps_JamPolygon.Rd
man/get_venn_polygon_shapes.Rd
man/grobs_exts.Rd
man/grobs_stack.Rd
man/grobs_tile.Rd
man/grobs_xalign.Rd
man/grobs_yalign.Rd
man/has_point_in_JamPolygon.Rd
man/im2list.Rd
man/im_value2list.Rd
man/intersect_JamPolygon.Rd
man/label_fill_JamPolygon.Rd
man/label_outside_JamPolygon.Rd
man/label_segment_JamPolygon.Rd
man/labelr_JamPolygon.Rd
man/list2im_opt.Rd
man/list2im_value.Rd
man/make_color_contrast.Rd
man/make_venn_combn_df.Rd
man/make_venn_test.Rd
man/match_list.Rd
man/mean_degree_arc.Rd
man/mean_degrees.Rd
man/minus_JamPolygon.Rd
man/nearest_point_JamPolygon.Rd
man/nudge_JamPolygon.Rd
man/nudge_venndir_label.Rd
man/overlaplist2setlist.Rd
man/plot.JamPolygon.Rd
man/point_in_JamPolygon.Rd
man/polyclip_to_JamPolygon.Rd
man/polygon_circles.Rd
man/polygon_ellipses.Rd
man/print_color_df.Rd
man/render_venndir.Rd
man/reposition_venn_gridtext_labels.Rd
man/rescale_coordinates.Rd
man/sample_JamPolygon.Rd
man/shrink_df.Rd
man/signed_counts2setlist.Rd
man/signed_overlaps.Rd
man/simple_ellipse.Rd
man/split_JamPolygon.Rd
man/spread_degrees.Rd
man/textvenn.Rd
man/three_point_angle.Rd
man/to_basic.GeomRichText.Rd
man/to_basic.GeomTextBox.Rd
man/union_JamPolygon.Rd
man/update_JamPolygon.Rd
man/venn_meme.Rd
man/venndir.Rd
man/venndir_label_style.Rd
man/venndir_legender.Rd
man/venndir_to_df.Rd
tests/testthat.R
tests/testthat/_snaps/.DS_Store
tests/testthat/_snaps/proportional-figure/euler-2-way-venndir.svg
tests/testthat/_snaps/proportional-figure/euler-4-way-venndir.svg
tests/testthat/_snaps/proportional-figure/proportional-nested-render-venndir.svg
tests/testthat/_snaps/proportional-figure/proportional-nested-venndir.svg
tests/testthat/_snaps/proportional-figure/venn-2-way-venndir.svg
tests/testthat/_snaps/proportional-figure/venn-3-way-render-venndir.svg
tests/testthat/_snaps/proportional-figure/venn-3-way-venndir.svg
tests/testthat/_snaps/proportional-figure/venn-4-way-venndir.svg
tests/testthat/_snaps/venn-meme/venn-meme-bix.svg
tests/testthat/test-converters.R
tests/testthat/test-curate.R
tests/testthat/test-overlaps.R
tests/testthat/test-proportional-figure.R
tests/testthat/test-proportional-hidden.R
tests/testthat/test-proportional.R
tests/testthat/test-setlist-names.R
tests/testthat/test-spatial.R
tests/testthat/test-utility.R
tests/testthat/test-venn-meme.R
venndir.Rproj
vignettes/.gitignore
vignettes/venndir_gene_expression.Rmd