API Reference

This section contains the complete API documentation for PICASSO, automatically generated from the NumPy-style docstrings in the source code.

API Documentation

• picasso.build_tree module
  • Classes
  • Picasso
• picasso.CloneTree module
  • Classes
  • CloneTree
• picasso.utils module
  • Functions
  • encode_cnvs_as_ternary()
  • load_data()
• picasso.itol_utils module
  • Functions
  • rgba_to_hex()
  • dataframe_to_itol_colorstrip()
  • dataframe_to_itol_heatmap()
  • dataframe_to_itol_stackedbar()

Overview

PICASSO (Phylogenetic Inference of Copy number Alterations in Single-cell Sequencing data Optimization) is designed to reconstruct tumor phylogenies from noisy, inferred copy number alteration (CNA) data derived from single-cell RNA sequencing.

Core Components

• picasso.build_tree.Picasso: Main phylogenetic inference algorithm

• picasso.CloneTree.CloneTree: Tree analysis and visualization tools

• picasso.utils: Data preprocessing and loading utilities

• picasso.itol_utils: iTOL visualization export functions