unravel.abca.sunburst.sunburst_expression module#

Use abca_sunburst_expression or sbe from UNRAVEL to calculate mean expression for all cell types in the ABCA and make a sunburst plot.

Prereqs:
  • merfish_filter.py and merfish_join_expression_data.py

  • Or: RNAseq_expression_in_mice.py and RNAseq_filter.py

Note

  • LUT location: unravel/core/csvs/ABCA/ABCA_sunburst_colors.csv

Next steps:
  • Use input_sunburst.csv to make a sunburst plot or regional volumes in Flourish Studio (https://app.flourish.studio/)

  • It can be pasted into the Data tab (categories columns = cell type columns, Size by = percent column)

  • Preview tab: Hierarchy -> Depth to 5, Colors -> paste content of …_colors.csv into Custom overrides

Usage:#

abca_sunburst_expression -i path/VTA_DA_cells_Th_expression.csv -g gene [-o path/out_dir] [-n] [-v]

unravel.abca.sunburst.sunburst_expression.parse_args()[source]#
unravel.abca.sunburst.sunburst_expression.main()[source]#