ggpedigree 1.1.1.1

v1.1.1.1

cran prep

ggpedigree 1.1.1.0.0

Update CRAN notes and rename CITATION file

Refresh CRAN check output in cran-comments.md to reflect resolved revdepcheck issues (BGmisc 1.5.2 and discord 1.3 now both OK) and remove the previous failure explanation. Also rename inst/CITATION.cff to inst/CITATION.

v1.1.0.3

What's Changed

• Id fixes by @smasongarrison in #97
• Adjust y-axis handling and spacing in pedigree plots by @smasongarrison in #99
• Fix spelling errors in pedigree construction error messages by @Copilot in #101
• Sexcoding by @smasongarrison in #100
• Hide sex legend by default and improve point scaling by @smasongarrison in #102
• eliminate reshape2 dependency by @smasongarrison in #104
• Dev by @smasongarrison in #103
• Scaling by @smasongarrison in #105
• Update buildPlotConfig.R by @smasongarrison in #106
• Config sex variable by @smasongarrison in #108
• Dev safe by @smasongarrison in #110
• Convert hex codes to R color names in greyscale theme by @Copilot in #113
• greyscale theming option by @smasongarrison in #112
• Config Vignette by @smasongarrison in #115
• Update documentation and vignettes for 1.1.0.2 release by @smasongarrison in #116
• [ImgBot] Optimize images by @imgbot[bot] in #117
• Finally resolves all simple pedigree issues by @smasongarrison in #119
• [ImgBot] Optimize images by @imgbot[bot] in #120
• Config file documentation by @smasongarrison in #121
• Final push? by @smasongarrison in #122
• JOSS by @smasongarrison in #124

Full Changelog: v1.0.0.1...v1.1.0.3

v1.0.0.1

Full Changelog: v1.0.0...v1.0.0.1

ggpedigree 1.0.0

What's Changed

• Folded in kinship2 functions to eliminate the dependency

• Made kinship2 package optional, and only needed for plotPedigree (a kinship2 wrapper)

• Importing relevant tests from kinship2 package

• Updated documentation to reflect changes

• Refactored code to improve maintainability

• Added more unit tests for the new functions

• Add max_message_n to pedigree function to allow users to get more messages about pedigree complexity

• Add test coverage for buildSpouseSegments in calcConnections.R by @Copilot in #85

• Adding unit test from co-pilot (worked surprisingly well) by @smasongarrison in #86

• [ImgBot] Optimize images by @imgbot[bot] in #87

• [WIP] Document all imported kinship functions by @Copilot in #89

• Kinship2port by @smasongarrison in #90

• removing the hard dependency on the kinship2 by @smasongarrison in #91

Full Changelog: v0.9...v1.0.0

ggpedigree 0.9.0

• smarter segment coloring
• added setting to hide legend for sex
• avoided sapply() in ggPedigreeInteractive
• added subfunction for adding twins
• add non-dot versions of internal functions for evaluating complexity
• added alpha settings
• added compatibility with pedigree objects from kinship2
• exposed code_female, code_na to config
• added tests for kinship2 compatibility
• Updated JOSS paper
• Refactored step 2+3 of the ggpedigree function to .transformPed()
• Renamed p variable as plotObject in ggpedigree subfunctions
• Smarter implementation of aliases
• Updated hex to actually use ggpedigree
• Exposed 'relations' and 'hints' inputs to ggpedigree
• Added more intuitive defaults
• refactor calcCoordinates with alignPedigreeWithHints and alignPedigreeWithRelations
• Vectorized part of calcCoordinates
• removed redundant plotPedigree verbose section
• add log2 option for relatedness
• Improve plotly conversion

ggpedigree 0.8.0

What's Changed

• fix generation issue + update plots by @smasongarrison in #38
• Fixed focal_fill ID being indexed to row order, rather than the ID order. by @smasongarrison in #39
• improving configuration management by @smasongarrison in #41
• Minor features by @smasongarrison in #43
• Dependency and import management by @smasongarrison in #44
• Dev by @smasongarrison in #46
• transferring asoif by @smasongarrison in #47
• Prep for push to cran by @smasongarrison in #48
• now? by @smasongarrison in #49

Full Changelog: v0.7.0...v0.8.0

v0.7.0

What's Changed

• Twins by @smasongarrison in #20
• 0.5 by @smasongarrison in #18
• fixed sporadic many-to-many warning by @smasongarrison in #21
• Focal fill by @smasongarrison in #23
• Update to Main by @smasongarrison in #24
• adding ggPhenotypebyDegree by @smasongarrison in #25
• Dev to base by @smasongarrison in #26
• Fill by lineage by @smasongarrison in #27
• Dev by @smasongarrison in #28
• no more excessive branches by @smasongarrison in #29
• Dev by @smasongarrison in #30
• a couple more tests by @smasongarrison in #31
• use x_fam instead of x_midparent by @smasongarrison in #32
• much faster now by @smasongarrison in #33
• Dev by @smasongarrison in #35
• support for geom relatedness matrix by @smasongarrison in #36

Full Changelog: v0.4.1...v0.7.0

v0.4.1

What's Changed

• hotfix by @smasongarrison in #17

Full Changelog: v0.4.0...v0.4.1

v0.4.0

What's Changed

• Dev by @smasongarrison in #9
• Dev by @smasongarrison in #10
• added getMidpoints test by @smasongarrison in #12
• Dev by @smasongarrison in #13
• add more to .4 by @smasongarrison in #14
• Dev update by @smasongarrison in #15

Full Changelog: v0.3.0...v0.4.0