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API Reference

  • Fragment functions
    • bpcells.experimental.import_10x_fragments
    • bpcells.experimental.build_cell_groups
    • bpcells.experimental.pseudobulk_insertion_counts
    • bpcells.experimental.precalculate_insertion_counts
    • bpcells.experimental.PrecalculatedInsertionMatrix
      • bpcells.experimental.PrecalculatedInsertionMatrix.shape
      • bpcells.experimental.PrecalculatedInsertionMatrix.get_counts
  • Matrix functions
    • bpcells.experimental.DirMatrix
      • bpcells.experimental.DirMatrix.T
      • bpcells.experimental.DirMatrix.shape
      • bpcells.experimental.DirMatrix.threads
      • bpcells.experimental.DirMatrix.from_h5ad
      • bpcells.experimental.DirMatrix.from_hstack
      • bpcells.experimental.DirMatrix.from_scipy_sparse
      • bpcells.experimental.DirMatrix.from_vstack
      • bpcells.experimental.DirMatrix.transpose
    • bpcells.experimental.MemMatrix
      • bpcells.experimental.MemMatrix.T
      • bpcells.experimental.MemMatrix.shape
      • bpcells.experimental.MemMatrix.threads
      • bpcells.experimental.MemMatrix.transpose

Tutorials

  • Basepair insertion counts tutorial
  • Matrix slicing tutorial
  • Python Docs
  • Matrix functions

Matrix functions#

experimental.DirMatrix(dir)

Disk-backed BPCells integer matrix

experimental.MemMatrix(dir[, threads])

In-memory BPCells integer matrix

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