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1.0.2
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@enblacar enblacar released this 25 Oct 15:38
v1.0.2
93f626c

Can be installed using:

devtools::install_github("enblacar/SCpubr", ref = "v1.0.2")

General changes

  • Change color palette when using enforce_symmetry = TRUE to have the middle color as grey95 instead of the previous one, which made middle values seem closer to the positive end of the scale.
  • Modified internal structure of all functions to abide with tidyselect v1.2.0 lifecycle modifications.
  • Modified rotate_x_axis_labels parameter in all functions that made use of it. Now, instead of accepting a logical, accepts a numeric: either 0, 45 or 90, corresponding to the degrees in which the X axis labels should be rotated. (#5)

SCpubr::do_CopyNumberVariantPlot

  • Modified the code for SCpubr::do_CopyNumberVariantPlot to also report results for the whole chromosome as well as for each chromosome arm.
  • Include the verbose argument to SCpubr::do_CopyNumberVariantPlot to silence the messages when there are not enough genes in the chromosome to perform the analysis.

SCpubr::do_DimPlot()

  • Fixed a typo that prevented labels to be bold in SCpubr::do_DimPlot() when cell borders are displayed.
  • Added group.by and split.by functionality to SCpubr::do_DimPlot(). (#4)

SCpubr::do_DotPLot()

  • Added ticks to axes.
  • Modified default colors to convey a better aesthetic.

SCpubr::do_FeaturePlot()

  • Fixed potential bugs in SCpubr::do_FeaturePlot when setting enforce_symmetry = TRUE.
  • Changed default value of order in SCpubr::do_FeaturePlot() from TRUE to FALSE.
  • Added min.cutoff and max.cutoff parameters to SCpubr::do_FeaturePlot(). This allows to effectively subset the color scale to the values provided. Cells outside the range will be converted to the min or max values provided, respectively. (#2)

SCpubr::do_GeyserPlot()

  • Added flip parameter.

SCpubr::do_GroupwiseDEPlot()

  • Fixed bug in SCpubr::do_GroupwiseDEPlot in which the heatmap could not be computed. (#3)
  • Added extra checks to ensure proper input in SCpubr::do_GroupwiseDEPlot. (#3)

SCpubr::do_LigandReceptorPlot() (development release)

  • Changed parameter x_labels_angle to rotate_x_axis_labels to keep a consistent terminology.

SCpubr::do_RidgePlot()

  • Fixed a typo that made the lines in panel.grid.minor to be displayed in SCpubr::do_Ridgeplot().
  • Added flip parameter.

SCpubr::do_ViolinPlot()

  • Added split.by functionality to SCpubr::do_ViolinPlot(). (#4, #5)
  • Added flip parameter.
  • Now multiple features can be queried ad the same time. (#5)
  • Changed feature parameter to features, to better reflect the multiple feature behavior.
  • Recreated Seurat's share.y.lims behavior and set it to share.y.lims parameter. (#5)
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