ggbrain 0.8.1 (21Mar2023)

feature: ggbrain objects can be added together, allowing common parts across plots to be reused
feature: geom_outline now supports dilation and erosion using the dil_ero argument
feature: geom_region_label* and geom_region_text* now support a min_px argument that controls the minimum number of pixels on a slice that will result in a label. Helps reduce labeling of small regions
feature: support aes(outline=, group=) for geom_outline, allowing for subdivision of outlines
bugfix: add workaround for show.legend bug when there are multiple fill layers: https://github.com/eliocamp/ggnewscale/issues/32
bugfix: switch to linewidth instead of size for borders in ggbrain_panel object
bugfix: default to cyan color (with message) if geom_outline is added without any color information
bugfix: correction to pass forward data.frame after fill_holes algorithm is applied
bugfix: nn interpolation for fill_holes now takes the mean of neighbors for continuous-valued data
bugfix: use the correct fill column when using remove_specks for a categorical image

ggbrain 0.8 (21Oct2022)

first public release of the package to CRAN (hooray!)
feature: add define() function to support contrast definition in ggbrain pipeline outside of a given layer
feature: fixed fill colors are now supported in geom_brain using geom_brain(fill='color_here')
feature: images() supports a volumes argument so that volumes from 4-D images can be visualized
feature: plot() on a ggbrain object supports guides argument that passes to plot_layout() in patchwork. Also, the default is now guides="collect", which combines shared legends.
feature: support min_coord and max_coord in montage function for coordinate-based ranges
update: archive ggbrain_legacy and remove cowplot dependency
update: add_images() is now images() for nonredundancy
update: add_slices() is now slices() for nonredundancy
update: renamed outline_size to just size in geom_outline for consistency with ggplot2 logic (e.g., geom_contour).
update: removed add_slice() in favor of slices(). If attributes such as bg_color are set by slices(), these will be the same for each slice in the operation.
bugfix: properly display geom_outline for continuous images

ggbrain 0.7 (23Sep2022)

feature: abstract fill_holes, trim_threads, and remove_specks to ggbrain_layer – exposed in geom_brain and geom_outline. This allows these modifications to be made for contrast layers.
feature: fill_holes now supported in geom_brain and geom_outline objects. Uses flood fill algorithm to find interior holes, then uses nearest neighbor imputation, taking the mode for categorical images and mean for continuous images.
feature: for annotations, q syntax now allows for quantiles above 1 or below 0, where 2 = 200% of max and -1 is -100% of min. This allows for annotations to be placed outside of image boundaries.
feature: implement Rcpp-based flood fill algorithm for finding interior holes on slices. Used for fill_holes.
feature: implement Rcpp-based pixel neighbor counting algorithm to clean up frayed edges of outlines and fills.
feature: switch to Rcpp mat2df function instead of reshape2::melt for speed. Remove reshape2 dependency
bugfix: when geom_raster is provided with alpha and na.value=‘transparent’, it draws semi-transparent squares. Switched to na.omit() when alpha < 1.
bugfix: ggbrain_slices still returns data for layers that are all NA so that layers are not dropped from range calculations.
bugfix: do not add a ggbrain_layer to a plot if all of its values are NA. Adds all_na field.
bugfix: properly handle ggbrain_images filter when an integer vector is provided
bugfix: fix simple_subset for contrast_parser when there are no brackets in the expression
bugfix: correct contrast_parser for conjunctions so that both numeric value and label are returned. Also now use := syntax for values.
bugfix: fully remove assumption of “label” column in categorical layers, fixing calculation of unique values in each categorical layer
bugfix: convert NAs to 0s within contrast parsing so that numeric logical comparisons always yield TRUE/FALSE and not NA.

ggbrain 0.6 (9Aug2022)

feature: for labeled images, clean_specks now counts specks by ROI/mask value
feature: support filter expression in add_image() to filter (subset) the data for a given image. Useful for thresholding or for subsetting an atlas to retain only certain values.
feature: montage() function to make adding many slices in a plane easy
feature: support plot() on ggbrain() objects so that the ggbrain settings can be amended prior to the render and plot steps
feature: support overall plot aesthetics including title, base_size, bg_color, and text_color. These are arguments to ggbrain()
feature: set tiny values on each slice to NA to support transparency at image boundaries (e.g., in ‘dead space’ on a structural)
feature: add_slice() function adds single slice and supports panel-specific aesthetics such as title and text_color
feature: contrasts that are simple subsetting operation on a labeled image retain labels in the contrast data
bugfix: correct accidental resetting of unified scale limits when a bisided scale was empty on one side
bugfix: correct range_breaks() for empty data
bugfix: pass through breaks to layers regardless of whether scale or breaks are set first
bugfix: cleaning specks no longer fails when a slice is empty
bugfix: refactor outlines so that empty slices do not generate completely filled layer

ggbrain 0.5.1 (2Aug2022)

abstract geom_brain and geom_outline to different R6 classes that inherit from ggbrain_layer
support blur_edge to allow for blurred outlines that are less jagged
support clean_specks = to remove regions of this size or smaller from slices
support alpha transparency in geom_brain and geom_outline layers with alpha=<number> syntax
support control of how outlines are grouped/calculated in labeled images using geom_outline(mapping=aes(group=<label_col>))
bugfix: allow for empty annotations in overall plot

ggbrain 0.5 (29Jul2022)

Initial internal release of ggbrain package