tomodrgn.commands.subtomo2chimerax.generate_color_per_particle#

generate_color_per_particle(ptcl_star: GenericStarfile, ptcl_block_name: str, labels_path: str | None = None, colormap: str | None = None)[source]#

Calculate an RGBA color for each particle’s unique label and store both labels and RGBA tuples in the particles star dataframe.

Parameters:

  • ptcl_star – volume-series star file (each row refers to a unique particle)

  • ptcl_block_name – name of the star file data block containing per-particle data (e.g. data_particles)

  • labels_path – path to array of coloring labels from which to derive each particle’s color, shape (nptcls, 1)

  • colormap – matplotlib colormap to translate labels to RGBA tuples. If None, uses ChimeraX color palette (repeated as necessary)

Returns:

None