scipy.sparse.coo_array#

class scipy.sparse.coo_array(arg1, shape=None, dtype=None, copy=False)[source]#

A sparse array in COOrdinate format.

Also known as the ‘ijv’ or ‘triplet’ format.

This can be instantiated in several ways:
coo_array(D)

with a dense array D

coo_array(S)

with another sparse array S (equivalent to S.tocoo())

coo_array((M, N), [dtype])

to construct an empty array with shape (M, N) dtype is optional, defaulting to dtype=’d’.

coo_array((data, (i, j)), [shape=(M, N)])
to construct from three arrays:

  1. data[:] the entries of the array, in any order

  2. i[:] the row indices of the array entries

  3. j[:] the column indices of the array entries

Where A[i[k], j[k]] = data[k]. When shape is not specified, it is inferred from the index arrays

Notes

Sparse arrays can be used in arithmetic operations: they support addition, subtraction, multiplication, division, and array power.

Advantages of the COO format

  • facilitates fast conversion among sparse formats

  • permits duplicate entries (see example)

  • very fast conversion to and from CSR/CSC formats

Disadvantages of the COO format
  • does not directly support:

    • arithmetic operations

    • slicing

Intended Usage

  • COO is a fast format for constructing sparse arrays

  • Once a array has been constructed, convert to CSR or CSC format for fast arithmetic and array vector operations

  • By default when converting to CSR or CSC format, duplicate (i,j) entries will be summed together. This facilitates efficient construction of finite element arrays and the like. (see example)

Examples

>>> # Constructing an empty array
>>> from scipy.sparse import coo_array
>>> coo_array((3, 4), dtype=np.int8).toarray()
array([[0, 0, 0, 0],
       [0, 0, 0, 0],
       [0, 0, 0, 0]], dtype=int8)

>>> # Constructing a array using ijv format
>>> row  = np.array([0, 3, 1, 0])
>>> col  = np.array([0, 3, 1, 2])
>>> data = np.array([4, 5, 7, 9])
>>> coo_array((data, (row, col)), shape=(4, 4)).toarray()
array([[4, 0, 9, 0],
       [0, 7, 0, 0],
       [0, 0, 0, 0],
       [0, 0, 0, 5]])

>>> # Constructing a array with duplicate indices
>>> row  = np.array([0, 0, 1, 3, 1, 0, 0])
>>> col  = np.array([0, 2, 1, 3, 1, 0, 0])
>>> data = np.array([1, 1, 1, 1, 1, 1, 1])
>>> coo = coo_array((data, (row, col)), shape=(4, 4))
>>> # Duplicate indices are maintained until implicitly or explicitly summed
>>> np.max(coo.data)
1
>>> coo.toarray()
array([[3, 0, 1, 0],
       [0, 2, 0, 0],
       [0, 0, 0, 0],
       [0, 0, 0, 1]])
Attributes
dtypedtype

Data type of the array

shape2-tuple

Get shape of a matrix.

ndimint

Number of dimensions (this is always 2)

nnz

Number of stored values, including explicit zeros.

data

COO format data array of the array

row

COO format row index array of the array

col

COO format column index array of the array

Methods

__len__()

__mul__(*args, **kwargs)

arcsin()

Element-wise arcsin.

arcsinh()

Element-wise arcsinh.

arctan()

Element-wise arctan.

arctanh()

Element-wise arctanh.

argmax([axis, out])

Return indices of maximum elements along an axis.

argmin([axis, out])

Return indices of minimum elements along an axis.

asformat(format[, copy])

Return this matrix in the passed format.

asfptype()

Upcast matrix to a floating point format (if necessary)

astype(dtype[, casting, copy])

Cast the matrix elements to a specified type.

ceil()

Element-wise ceil.

conj([copy])

Element-wise complex conjugation.

conjugate([copy])

Element-wise complex conjugation.

copy()

Returns a copy of this matrix.

count_nonzero()

Number of non-zero entries, equivalent to

deg2rad()

Element-wise deg2rad.

diagonal([k])

Returns the kth diagonal of the matrix.

dot(other)

Ordinary dot product

eliminate_zeros()

Remove zero entries from the matrix

expm1()

Element-wise expm1.

floor()

Element-wise floor.

getH()

Return the Hermitian transpose of this matrix.

get_shape()

Get shape of a matrix.

getcol(j)

Returns a copy of column j of the matrix, as an (m x 1) sparse matrix (column vector).

getformat()

Format of a matrix representation as a string.

getmaxprint()

Maximum number of elements to display when printed.

getnnz([axis])

Number of stored values, including explicit zeros.

getrow(i)

Returns a copy of row i of the matrix, as a (1 x n) sparse matrix (row vector).

log1p()

Element-wise log1p.

max([axis, out])

Return the maximum of the matrix or maximum along an axis.

maximum(other)

Element-wise maximum between this and another matrix.

mean([axis, dtype, out])

Compute the arithmetic mean along the specified axis.

min([axis, out])

Return the minimum of the matrix or maximum along an axis.

minimum(other)

Element-wise minimum between this and another matrix.

multiply(other)

Point-wise multiplication by another matrix

nonzero()

nonzero indices

power(n[, dtype])

This function performs element-wise power.

rad2deg()

Element-wise rad2deg.

reshape(self, shape[, order, copy])

Gives a new shape to a sparse matrix without changing its data.

resize(*shape)

Resize the matrix in-place to dimensions given by shape

rint()

Element-wise rint.

set_shape(shape)

See reshape.

setdiag(values[, k])

Set diagonal or off-diagonal elements of the array.

sign()

Element-wise sign.

sin()

Element-wise sin.

sinh()

Element-wise sinh.

sqrt()

Element-wise sqrt.

sum([axis, dtype, out])

Sum the matrix elements over a given axis.

sum_duplicates()

Eliminate duplicate matrix entries by adding them together

tan()

Element-wise tan.

tanh()

Element-wise tanh.

toarray([order, out])

See the docstring for spmatrix.toarray.

tobsr([blocksize, copy])

Convert this matrix to Block Sparse Row format.

tocoo([copy])

Convert this matrix to COOrdinate format.

tocsc([copy])

Convert this matrix to Compressed Sparse Column format

tocsr([copy])

Convert this matrix to Compressed Sparse Row format

todense([order, out])

Return a dense matrix representation of this matrix.

todia([copy])

Convert this matrix to sparse DIAgonal format.

todok([copy])

Convert this matrix to Dictionary Of Keys format.

tolil([copy])

Convert this matrix to List of Lists format.

trace([offset])

Returns the sum along diagonals of the sparse matrix.

transpose([axes, copy])

Reverses the dimensions of the sparse matrix.

trunc()

Element-wise trunc.