What's Changed

• Improve Seurat and ggplot compatibility by @lazappi in https://github.com/lazappi/clustree/pull/95
• Update CI by @lazappi in https://github.com/lazappi/clustree/pull/96

Full Changelog: https://github.com/lazappi/clustree/compare/v0.5.0...v0.5.1

What's Changed

Minor changes

• Added node_text_angle argument to clustree() (Fixes #79, PR #80 from @kittingseerup)

New Contributors

• @kvittingseerup made their first contribution in https://github.com/lazappi/clustree/pull/80

Full Changelog: https://github.com/lazappi/clustree/compare/v0.4.4...v0.5.0

Bug fixes

• Minor changes to tests which were failing due to changes in the Bioconductor
  3.14 release
• Minor updates to URLs in documentation

Other changes

• Updates to CI by @lazappi in https://github.com/lazappi/clustree/pull/68

Full Changelog: https://github.com/lazappi/clustree/compare/v0.4.3...v0.4.4

Bug fixes

• Fix axis label order in clustree() (Fixes #44)
• Add checks to handle features including "-" characters for Seurat and SingleCellExperiment interfaces to clustree() and clustree_overlay() (Fixes #43)
• Change how metadata columns are extracted for compatibility with tibble objects (Fixes #52)

Other changes

• Replace the iris_clusts dataset with the nba_clusts dataset
• Increase R dependency to > 3.5

Bug fixes

• Fix bug where the sc_example dataset required loading additional libraries as notified by CRAN (Fixes #40)
  • sc_example contained a DataFrame rather than a data.frame for the SC3 data, this has now been fixed
• Add fixed alpha scale range to clustree_overlay() (Fixes #41)
  • Alpha will now represent in_prop values between 0 and 1
• Change how point colour resolution name is determined for side plots in clustree_overlay() (Fixes #38)
• Fix missing alpha scale in clustree() (Fixes #32)
• Change prefix matching to simpler exact method without regular expressions
  • This should allow matching the start of column names without the wildcard problem in Issue #19
• Fixes for minor bugs discovered with new unit tests

Other changes

• Add additional unit tests, including some missing from clustree_overlay()
  • Tests for matching prefix values
  • Test for point colour in clustree_overlay() with rounded resolutions

Bug fixes

• Remove requirement for clustering matrix to be numeric (Fixes #33)
• Fix bug where sc3_stability became character with character cluster names
• Keep order when all cluster names are numeric
• Improve how reducedDims are accessed on SingleCellExperiment objects
• Fix minor typos in documentation

Minor changes

• Add support for Seurat v3 objects (thanks to @mojaveazure)
• Add SC3 stability index section to vignette (Fixes #28)

Minor changes

• Make the cluster node attribute a factor to improve use as node colour (Fixes
  #20)
• Add show_axis argument that displays the y-axis with resolution values and
  gridlines (Fixes #24)
• Add ability to add additional node labels with custom information (Fixes #23)
• Update CITATION to give information about the Gigascience paper
• Update README
• Update vignette
  • Add custom labels section
  • Add references
  • Add table of contents and number sections

Bug fixes

• Add checks for metadata column and node aesthetic names (Fixes #15)
• Use fixed patterns when identifying clustering columns in data.frames (Fixes
  #19)