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brisc documentation

  • Tutorials
  • SingleCell
  • Pseudobulk
  • DE
  • Tutorials
  • SingleCell
  • Pseudobulk
  • DE

Pseudobulk

  • I/O
    • __init__
    • save
  • Properties
    • X
    • obs
    • var
    • obs_names
    • var_names
    • num_threads
    • shape
  • Data access
    • sample
    • gene
  • Dictionary interface
    • keys
    • values
    • items
    • iter_X
    • iter_obs
    • iter_var
    • __contains__
    • __or__
    • __eq__
  • Manipulation
    • set_obs_names
    • set_var_names
    • set_num_threads
    • filter_obs
    • filter_var
    • select_obs
    • select_var
    • select_cell_types
    • with_columns_obs
    • with_columns_var
    • drop_obs
    • drop_var
    • drop_cell_types
    • rename_obs
    • rename_var
    • rename_cell_types
    • cast_X
    • cast_obs
    • cast_var
    • join_obs
    • join_var
    • subsample_obs
    • subsample_var
    • split_by_cell_type
    • concat_obs
    • concat_var
  • Transformation
    • copy
    • to_df
    • map_X
    • map_obs
    • map_var
  • Analysis
    • qc
    • library_size
    • CPM
    • log_CPM
    • regress_out
    • DE
  • Utility
    • peek_obs
    • peek_var
    • pipe
    • pipe_X
    • pipe_obs
    • pipe_var
  • Pseudobulk
  • Transformation

Transformation#

Pseudobulk.copy

Make a copy of this Pseudobulk dataset.

Pseudobulk.to_df

Convert this Pseudobulk object to a polars DataFrame, with one row per (sample, cell type) pair and one column per gene.

Pseudobulk.map_X

Apply a function to each cell type's X.

Pseudobulk.map_obs

Apply a function to each cell type's obs.

Pseudobulk.map_var

Apply a function to each cell type's var.

previous

concat_var

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copy

© Copyright 2025, Keon Arbabi & Michael Wainberg.

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