singleCellTK release v2.14.0

• Updated version to match Bioconductor 3.19
• Update runGSVA function to work with newer GSVA package

singleCellTK release v2.12.2

• Added support for Seurat V5

singleCellTK release v2.12.1

• Updates to documentation
• Fixes to runTSCAN and plotSeurat Genes
• Added support for flat file import into SCTK-QC
• Fixed directory issue in importCellRanger
• Added Bubble plot to Shiny GUI
• Updated Dockerfile

singleCellTK release v2.12.0

• Updated version to match Bioconductor 3.18

singleCellTK release v2.10.1

• Added function for bubble plot
• In SCTK-QC pipeline, added support for batch processing multiple inputs
• In SCTK-QC pipeline, added support for importing and exporting AnnData objects
• In SCTK-QC pipeline, fixed a bug causing YAML output files to be empty
• Update the SCTK-QC tutorial
• Fixed bug in combineSCE causing it to create multiple copies of row or column data

singleCellTK release v2.10.0

• Updated version to match Bioconductor 3.17

singleCellTK release v2.8.1

• Added scanpy wrapper functions for use from console
• Added scanpy UI curated workflow
• Integrated scanpy to a la carte workflow
• Fixed a bug in importing fluidigm dataset
• Updated downloading features in the Shiny app
• Added error checking around Enrichr functions
• Minor tweaks to plot defaults

singleCellTK release v2.8.0

• Updated version to match Bioconductor version

singleCellTK release v2.7.3

• Fixed bugs related to dependency updates

singleCellTK release v2.7.2

• Deprecated findMarkerDiffExp(), findMarkerTopTable() and plotMarkerDiffExp(), which are replaced by runFindMarker(), getFindMarkerTopTable() and plotFindMarkerHeatmap(), respectively
• Added useReducedDim, detectThresh arguments for find marker functions
• Deprecated getUMAP() and getTSNE(), which are replaced by runUMAP() and runTSNE(), respectively
• Added runQuickUMAP() and runQuickTSNE() functions which directly compute the proper embedding from raw counts matrices with a simplified argument set
• Added arguments aggregateRow and aggregateCol to plotSCEHeatmap()
• Updated output metadata structure of QC functions, as well as combineSCE() which merges the new structure properly
• Refined batch correction function set
• Fixed bugs related to UI and console functions