A 'ggplot2' Extension for Consistent Axis Alignment
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Documentation for package ‘ggalign’ version 1.0.2
Help Pages
A C D E F G H I L M N O P Q R S T W misc
-- A --
| active | Plot Adding Context Settings |
| align_dendro | Plot dendrogram tree |
| align_group | Group and align observations based on a group vector |
| align_hclust | Reorder or Group observations based on hierarchical clustering |
| align_kmeans | Split observations by k-means clustering groups. |
| align_order | Order observations based on weights |
| align_order2 | Reorders layout observations based on specific statistics. |
| align_phylo | Plot Phylogenetics tree |
| align_plots | Arrange multiple plots into a grid |
| anno_bottom | Determine the Active Context of Quad-Layout |
| anno_left | Determine the Active Context of Quad-Layout |
| anno_right | Determine the Active Context of Quad-Layout |
| anno_top | Determine the Active Context of Quad-Layout |
| area | Define the plotting areas in 'align_plots' |
-- C --
| channelGrob | Create a Grob That Spans Multiple Viewports |
| circle_continuous | Arrange plots in a circular layout |
| circle_discrete | Arrange plots in a circular layout |
| circle_layout | Arrange plots in a circular layout |
| circle_switch | Determine the active context of circle layout |
| continuous_limits | Set continuous limits for the layout |
| coord_circle | Polar Coordinates with Enhanced Controls |
| cross_link | Add a plot to connect selected observations |
| cross_mark | Add a plot to annotate observations |
| cross_none | Reset layout ordering and panel group |
-- D --
| draw_key_gshape | Key glyphs for legends |
-- E --
| element_curve | Theme curve elements |
| element_polygon | Theme Polygon elements |
| element_rep | Apply a function to the fields of an element object |
| element_rep_len | Apply a function to the fields of an element object |
| element_vec | Apply a function to the fields of an element object |
| element_vec_recycle | Apply a function to the fields of an element object |
| element_vec_rep | Apply a function to the fields of an element object |
| element_vec_rep_each | Apply a function to the fields of an element object |
| element_vec_slice | Apply a function to the fields of an element object |
-- F --
| facet_sector | Polar coordinates with Facet support |
| fortify_data_frame | Build a data frame |
| fortify_data_frame.character | Build a data frame |
| fortify_data_frame.complex | Build a data frame |
| fortify_data_frame.default | Build a data frame |
| fortify_data_frame.DelayedMatrix | Build a data frame |
| fortify_data_frame.dendrogram | Build a data frame |
| fortify_data_frame.hclust | Build a data frame |
| fortify_data_frame.logical | Build a data frame |
| fortify_data_frame.Matrix | Build a data frame |
| fortify_data_frame.matrix | Build a data frame |
| fortify_data_frame.numeric | Build a data frame |
| fortify_data_frame.phylo | Build a data frame |
| fortify_matrix | Build a Matrix |
| fortify_matrix.default | Build a Matrix |
| fortify_matrix.GISTIC | Build a matrix from a maftools object |
| fortify_matrix.list | Build a Matrix for UpSet plot |
| fortify_matrix.list_upset | Build a Matrix for UpSet plot |
| fortify_matrix.MAF | Build a Matrix for OncoPrint |
| fortify_matrix.MAF_pathways | Build a Matrix for OncoPrint |
| fortify_matrix.matrix | Build a matrix |
| fortify_matrix.matrix_oncoplot | Build a Matrix for OncoPrint |
| fortify_matrix.matrix_upset | Build a Matrix for UpSet plot |
| fortify_matrix.phylo | Build a matrix from 'phylo' object |
| free_align | Free from alignment |
| free_border | Free from alignment |
| free_guide | Free from alignment |
| free_lab | Free from alignment |
| free_space | Free from alignment |
| free_vp | Free from alignment |
-- G --
| geom_draw | Layer with Grid or Function |
| geom_gshape | Layer with a customized shape graphic using grid functions. |
| geom_pie | Pie charts |
| geom_rect3d | Add z-aesthetic for geom_tile |
| geom_subrect | Subdivide Rectangles |
| geom_subtile | Subdivide Rectangles |
| geom_tile3d | Add z-aesthetic for geom_tile |
| ggalign | Add ggplot by Aligning discrete or continuous variable |
| ggalignGrob | Generate a plot grob. |
| ggalign_attr | Get Data from the Attribute Attached by ggalign |
| ggalign_data_set | Attach supplementary data and levels for ggalign |
| ggalign_lvls | Get Data from the Attribute Attached by ggalign |
| ggalign_stat | Get the statistics from the layout |
| ggalign_stat.QuadLayout | Get the statistics from the layout |
| ggalign_stat.StackLayout | Get the statistics from the layout |
| ggcross | Connect two layout crosswise |
| ggfree | Add ggplot to layout without alignment |
| ggfree.default | Add ggplot to layout without alignment |
| ggheatmap | Create a heatmap |
| ggmark | Add a plot to annotate selected observations |
| ggoncoplot | Create an OncoPrint |
| ggoncoplot.default | Create an OncoPrint |
| ggside | Arrange plots in the quad-side of a main plot |
| ggupset | Create an UpSet plot |
| ggwrap | Wrap Arbitrary Graphics to ggplot |
-- H --
| hclust2 | Generate Tree Structures with Hierarchical Clustering |
| heatmap_layout | Create a heatmap |
| hmanno | Determine the Active Context of Quad-Layout |
-- I --
| inset | Create a ggplot inset |
| is_circle_layout | Reports whether 'x' is layout object |
| is_ggheatmap | Reports whether 'x' is layout object |
| is_heatmap_layout | Reports whether 'x' is layout object |
| is_layout | Reports whether 'x' is layout object |
| is_quad_layout | Reports whether 'x' is layout object |
| is_stack_cross | Reports whether 'x' is layout object |
| is_stack_layout | Reports whether 'x' is layout object |
-- L --
| layer_order | Change the layer adding order |
| layout-operator | Layout operator |
| layout_annotation | Modify components of the layout |
| layout_design | Define the grid to compose plots in |
| layout_title | Annotate the whole layout |
| link_draw | Define the links to connect a pair of observations |
| link_line | Link the paired observations with a line |
| link_tetragon | Link the paired observations with a quadrilateral |
-- M --
| magickGrob | Rasterize a grob object with magick |
| mark_draw | Define the links to connect the marked observations |
| mark_line | Link the observations and the panel with a line |
| mark_tetragon | Link the observations and the panel with a quadrilateral |
| mark_triangle | Link the observations and the panel with a triangle |
| memo_order | Sort matrix for better visualization |
-- N --
| new_tune | Change the shape of the input object |
| no_expansion | Remove scale expansion |
-- O --
| order2 | Ordering Permutation |
| order2.dendrogram | Ordering Permutation |
| order2.hclust | Ordering Permutation |
| order2.memo_weights | Ordering Permutation |
| order2.phylo | Ordering Permutation |
| order2.ser_permutation | Ordering Permutation |
| order2.ser_permutation_vector | Ordering Permutation |
-- P --
| pair_links | Helper function to create pairs of observation groups |
| patch.alignpatches | Convert Object into a Grob |
| patch.formula | Convert Object into a Grob |
| patch.function | Convert Object into a Grob |
| patch.ggplot | Convert Object into a Grob |
| patch.gList | Convert Object into a Grob |
| patch.grob | Convert Object into a Grob |
| patch.Heatmap | Convert Object into a Grob |
| patch.HeatmapAnnotation | Convert Object into a Grob |
| patch.HeatmapList | Convert Object into a Grob |
| patch.patch | Convert Object into a Grob |
| patch.patchwork | Convert Object into a Grob |
| patch.patch_ggplot | Convert Object into a Grob |
| patch.pheatmap | Convert Object into a Grob |
| patch.recordedplot | Convert Object into a Grob |
| patch.trellis | Convert Object into a Grob |
| patch_titles | Add patch titles to plot borders |
-- Q --
| quad_active | Determine the Active Context of Quad-Layout |
| quad_alignb | Arrange plots in the quad-side of a main plot |
| quad_alignh | Arrange plots in the quad-side of a main plot |
| quad_alignv | Arrange plots in the quad-side of a main plot |
| quad_anno | Determine the Active Context of Quad-Layout |
| quad_continuous | Arrange plots in the quad-side of a main plot |
| quad_discrete | Arrange plots in the quad-side of a main plot |
| quad_free | Arrange plots in the quad-side of a main plot |
| quad_layout | Arrange plots in the quad-side of a main plot |
| quad_switch | Determine the Active Context of Quad-Layout |
-- R --
| range_link | Helper function to create pairs of observation groups |
| raster_magick | Rasterize the ggplot layers |
| read_example | Read Example Data |
-- S --
| scale_gshape_manual | Scale for 'gshape' aesthetic |
| scale_z_binned | z scales |
| scale_z_continuous | z scales |
| scale_z_date | z scales |
| scale_z_datetime | z scales |
| scale_z_discrete | z scales |
| scale_z_ordinal | z scales |
| scheme_align | Align Specifications in the Layout |
| scheme_data | Plot data Specifications |
| scheme_theme | Plot default theme |
| stack_active | Determine the active context of stack layout |
| stack_align | Arrange plots horizontally or vertically |
| stack_alignh | Arrange plots horizontally or vertically |
| stack_alignv | Arrange plots horizontally or vertically |
| stack_continuous | Arrange plots horizontally or vertically |
| stack_continuoush | Arrange plots horizontally or vertically |
| stack_continuousv | Arrange plots horizontally or vertically |
| stack_cross | Arrange plots crosswise horizontally or vertically |
| stack_crossh | Arrange plots crosswise horizontally or vertically |
| stack_crossv | Arrange plots crosswise horizontally or vertically |
| stack_discrete | Arrange plots horizontally or vertically |
| stack_discreteh | Arrange plots horizontally or vertically |
| stack_discretev | Arrange plots horizontally or vertically |
| stack_free | Arrange plots horizontally or vertically |
| stack_freeh | Arrange plots horizontally or vertically |
| stack_freev | Arrange plots horizontally or vertically |
| stack_horizontal | Arrange plots horizontally or vertically |
| stack_layout | Arrange plots horizontally or vertically |
| stack_switch | Determine the active context of stack layout |
| stack_vertical | Arrange plots horizontally or vertically |
-- T --
| theme_no_axes | Remove axis elements |
| tune | Change the shape of the input object |
| tune.list | Convert the shape of a list for fortify method |
| tune.MAF | Convert the shape of a MAF for fortify method |
| tune.matrix | Convert the shape of a matrix for fortify method |
| tune_data | Change the shape of the input object |
-- W --
| with_quad | Modify operated Context in 'quad_layout()' |
-- misc --
| .link_draw | Define the links to connect a pair of observations |
| .mark_draw | Define the links to connect the marked observations |