Changes in version 1.5.6 - Fix legend plotting when ggplot_gen is TRUE - Reduce kindepth() warning and error messages to show necessary information. - Fix lwd usage instead of cex in ped_to_legdf() Changes in version 1.5.5 - Add label_cex and label_size to control id, date and label text position and size - Fix csv reading with incoherent number of columns in rows - Fix check box align_parents in ped_shiny() - Fix auto_hint() error when couple present twice - Fix stress computation when individual present more than twice - Add ind_max_warning and ind_max_error for a better control of pedigree size to plot in shiny application Changes in version 1.5.4 - Add best_hint computation to the shiny app and split it in different subfunction - Remove little used library from Imports - Change shinyWidgets::pickerInput to shiny::selectInput - Remove 0 from default na_strings - Update citation to use published article in Bioinformatics - Add error for _ present in any id columns - Fix shiny app notification title and slider intermediary value selection - Fix full scale data reaffection on same column - Improve position and size of proband label and assymptomatic symbol for logo Changes in version 1.5.3 - Add short explanation of hints() usage in Pedigree alignment details vignette. Changes in version 1.5.2 - Fix resizing plot in shiny module by adding dependency - Update website and readme Changes in version 1.5.1 - Separate plot management in a shiny module - Add plot_resize shiny module - Add help messages using shinyhelper - Add plink_to_pedigree function to convert plink files to Pedigree object - Add 0 as one of the default missing identifier value - Set ggplot generation as independent without plotting on current device - All draw_* functions return a layer instead of a ggplot object - Add back message for individuals not plotted - Add autocompletion of missing twins relationship with complete_twins() Changes in version 1.3.4 - Add example of interactivness in vignette - Fix label adjusting position in plot functions - Fix arrow size in ggplot Changes in version 1.3.1 - Add support for .ped, .tsv files in data import - is_informative independent from useful_inds - Use directly columns names from fill instead of the mods columns - Move to R 4.4 and Bioc 3.20 - Fix unittests and update snapshots - Change normalisation process to directly use id, dadid, momid, famid, sex no more need for indId, fatherId, ... - affection is now used as default affection modality columns that will be used to generate affected - status is replaced by deceased - steril is replaced by fertility and corresponding symbols is added for infertile and infertile_choice_na - terminated sex code is replace by miscarriage new slot - miscarriage, evaluated, consultand, proband, carrier, asymptomatic and adopted are now recognize and use for plotting - Argument order of Ped() as changed when using vectors. This choice has been made for a better consistency across the package. Please check that your argument are properly named (i.e. sex has been moved after famid and avail after deceased). - Shiny application is updated and improved (aesthetics, errors, warnings, functionnalities). - Add dateofbirth and dateofdeath to the Ped object - Changee from round to signif for the precision argument - Improve stability of test by adding and controlling the options() and par() arguments in the unittests. - Carrier symbols is proportional to the mean of the box size Changes in version 1.2.0 - Change code of ped_to_legdf - When plotting with the main plot, the legend gets its own space separate from the plot. This allow better control over the size and localisation of the legend. - The graphical parameters are reset after each use of plot_fromdf - Add tooltips control in Pedigree plots and add it to the app - Add example of interactivness in vignette - Fix plot area function and legend creation for better alignment Changes in version 1.1.4 - Update website and logo - Improve ped_shiny() esthetics - Change plot element order rendering for better looks - Add more control to line width of box and lines - Improve legend ordering - Separate website building workflow from check - Update function documentation and set to internal all unnecessary functions for users - Stabilize unit test - Standardize the vignettes and add more documentation - Fix label adjusting position in plot functions Changes in version 1.1.3 - Fix github workflows - Disable ped_shiny() execution in markdown - Publish with pkgdown Changes in version 1.1.2 - Use R version 4.4 and update workflows Changes in version 1.1.1 - A shiny application is now available through the ped_shiny() function. - Function imports have been cleaned. - Unit tests have been added as well as more snapshot to increase package coverage. - relped dataset allows to easily test special relationship. - Documentation is enhanced and correctly linted. - precision parameter has been added to align4() and set_plot_area() to reduce noise between platform. - fix_parents() has been fixed and improved. - More controls over color setting with generate_colors(). - Possibility to force computation of alignement when it fails with force = TRUE. - upd_famid_id() to upd_famid(). - Zooming in a pedigree object is now done by subsetting the dataframe computed by ped_to_plotdf(). - useful_inds() function has been improved. Changes in version 0.99.0 - Kinship2 is renamed to Pedixplorer and hosted on Bioconductor. - Pedigree is now a S4 object, all functions are updated to work with the new class - Pedigree constructor now takes a data.frame as input for the Pedigree informations and for the special relationship. The two data.fram are normalized before being used. - plot.pedigree support ggplot generation, mark and label can be added to the plot. The plot is now generated in two steps ped_to_plotdf() and plot_fromdf(). This allows the user to modify the plot before it is generated. - All documentation are now generated with Roxygen - New function available: generate_aff_inds, generate_colors, is_informative, min_dist_inf, normData, num_child, useful_inds - All functions renamed to follow the snake_case convention - All parameters renamed to follow the snake_case convention - All test now use testthat files - Vignettes have been updated to reflect the new changes