Generating a dense matrix from a sparse matrix in numpy python

user2374515 picture user2374515 · May 12, 2013 · Viewed 88.2k times · Source

I have a Sqlite database that contains following type of schema:

termcount(doc_num, term , count)

This table contains terms with their respective counts in the document. like

(doc1 , term1 ,12)
(doc1, term 22, 2)
.
.
(docn,term1 , 10)

This matrix can be considered as sparse matrix as each documents contains very few terms that will have a non-zero value.

How would I create a dense matrix from this sparse matrix using numpy as I have to calculate the similarity among documents using cosine similarity.

This dense matrix will look like a table that have docid as the first column and all the terms will be listed as the first row.and remaining cells will contain counts.

Answer

Rachel Gallen picture Rachel Gallen · May 12, 2013
 from scipy.sparse import csr_matrix
 A = csr_matrix([[1,0,2],[0,3,0]])
 >>>A
 <2x3 sparse matrix of type '<type 'numpy.int64'>'
    with 3 stored elements in Compressed Sparse Row format>
 >>> A.todense()
   matrix([[1, 0, 2],
           [0, 3, 0]])
 >>> A.toarray()
      array([[1, 0, 2],
            [0, 3, 0]])

this is an example of how to convert a sparse matrix to a dense matrix taken from scipy