All notable changes to DOtools will be documented in this file.
[0.99.0] - 2025-07-08
Added
-
DO.Heatmap: Heat map function for gene expression, includes statistics about significance.
- Example data set, useable for running the tutorial.
Changed
- Major adjustments across various functions for improved consistency.
- Major adjustments across various examples.
[0.4.0] - 2025-06-09
Added
-
DO.SplitBarGSEA: Bar plot function for GSEA results (e.g., from Metascape).
-
DO.scVI: Wrapper function to run scVI integration on a Seurat object.
Changed
- Minor adjustments across various functions for improved consistency.
[0.3.0] - 2025-05-28
Added
-
DO.Import: Simplifies Seurat object creation.
-
DO.CellBender: Enables running CellBender on aligner-generated HDF5 files.
Changed
- Minor adjustments and internal improvements.
[0.2.0] - 2025-05-26
Added
-
DO.CellBender: Functionality to run CellBender (initial version).
-
DO.BarcodeRanks: New function for barcode rank visualization.
Changed
- Minor adjustments for stability and usability.
[0.1.1] - 2025-05-26
Changed
- Minor adjustments to function behavior and formatting.
[0.1.0] - 2025-04-09
Added
-
DO.CellCompositions: Integrates the scanpro tool to detect changes in cell composition.
- New connected stacked bar plot in scanpro output highlighting significant composition changes.
-
DO.Dotplot: Added pseudobulk option for y-axis.
[0.0.2] - 2025-04-03
Fixed
- Bug in
DO.Box.plot: Meta.data features could not be specified.
- Bug in
DO.Vln.plot: Meta.data features could not be specified.
Added
- New argument in
DO.Box.plot: Enables user-defined x-axis sorting.
[0.0.1] - 2025-03-27
Added
- Initial commit: core structure and foundational functions.