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update docs
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rob-p committed Aug 4, 2020
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5 changes: 3 additions & 2 deletions docs/source/quant.rst
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Expand Up @@ -24,12 +24,13 @@ output
------

The output of the ``quant`` command consists of 3 files: ``barcodes.txt``,
``counts.mtx`` and ``gene_names.txt``. The ``counts.mtx`` is a matrix market
``counts.mtx.gz`` and ``gene_names.txt``. The ``counts.mtx.gz`` is a matrix market
coordinate format file where the number of *rows* is equal to the number of
genes and the number of columns is equal to the number of *cells*. The header
line encodes the number of rows, columns and non-zero entries. The subsequent
lines (1-based indexing) encode the locations and values of the non-zero
entries. The two other files provide the labels for the rows and columns of
entries. This entire ``.mtx`` format file is gzipped during output to minimize
disk space. The two other files provide the labels for the rows and columns of
this matrix. The ``gene_names.txt`` file is a text file that contains the
names of the rows of the matrix, in the order in which it is written, with
one gene name written per line. The ``barcodes.txt`` file is a text file that
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