-imx <fname> (matrix file) |
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Input matrix.
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-dump <fname> (dumpf file ('-' for stdout)) |
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Output stream.
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-tab <fname> (row/column tab (label) file) |
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Substitute column indices and row indices by labels from the tab file.
Since the same tab file is used for both, this implies that the matrix
domains are identical.
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-tabc <fname> (column tab file) |
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Substitute column indices by labels from the tab file.
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-tabr <fname> (row tab file) |
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Substitute row indices by labels from the tab file.
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--lazy-tab (allow tab/domain mismatch) |
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If used, the tab file domain(s) do not necessarily need to match
the corresponding domain in the input matrix. Entries missing in
the tab files will be replaced by a question mark.
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--no-values (omit values) |
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Do not emit values.
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--no-loops (omit loops) |
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Do not output entries for which the row index equals the column index,
if present.
Applies only to matrices for which column and row domains are equal.
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--force-loops (force loops) |
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For each column, force output of a row entry that matches the
column index.
Applies only to matrices for which column and row domains are equal.
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--dump-pairs (emit pairs per line) |
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Output a single pair of column-identifier and row-identifier per line,
optionally followed by the value of the corresponding matrix entry.
All fields are separated by the field separator.
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--dump-lines (emit rows per line) |
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For each matrix column, the corresponding row is output on a
single line, with row identifiers separated by the field separator
and values attached to the row identifier by the node/value separator.
In this format, the column identifier is output as the leading field.
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--dump-rlines (omit leading column node) |
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As the option above, except that the column identifier is not output.
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--dump-tabc (dump tab file on column domain) |
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This will only infer the domains from the input matrix. It assumes
the input tab file envelopes the matrix column domain, and it outputs
a new tab file restricted to that domain.
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--dump-tabr (dump tab file on row domain) |
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This will only infer the domains from the input matrix. It assumes
the input tab file envelopes the matrix row domain, and it outputs
a new tab file restricted to that domain.
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-sep-value <str> (node/value separator) |
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Set the node/value separator for line based row ensemble output.
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-sep-field <str> (field separator) |
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Set the field separator for different row indices in a given column.
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-sep-lead <str> (lead separator) |
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Set the lead separator. In the --dump-lines format it
separates the leading column index from the following ensembl of
row indices. It can be useful to make this different from the
field separator. One can for example grep for columns that have
more than one entry in a matrix mapping nodes to clusters. This
will find nodes in overlap.
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-h (list help) |
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Print help, same as --apropos.
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--apropos (list synopsis of all options) |
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List a one-line synopsis for all options.
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