API

Import Sparty as:

import sparty as spt

• Input/Output
  • load_cosmx()
  • load_merscope()
  • load_xenium()
  • shapes_from_xe()
• Preprocessing
  • sparty.pp.run_scanpy
  • sparty.pp.subsetSamples
  • sparty.pp.metrics_summary
• Tools
  • pseudobulk()
  • alpha_shape_optimal()
  • centerline()
  • unassigned_RNA()
• Plotting
  • sparty.pl.plot_qc
  • sparty.pl.plot_sdata
  • sparty.pl.plot_multi_sdata
  • sparty.pl.plot_shape_along_axis
  • sparty.pl.plot_per_groups
  • sparty.pl.scis_prop