Opened 16 years ago

Closed 16 years ago

#639 closed task (fixed)

exportPureMatrix method

Reported by: Peter Johansson Owned by: Jari Häkkinen
Priority: minor Milestone: BASE 2.7.1
Component: coreplugins Version: 2.7
Keywords: Cc:

Description (last modified by Jari Häkkinen)

It would be useful to have a method exporting a BioAssaySet to pure matrix, in other words, a matrix with no additional header or reporter information. Each column in the matrix corresponds to a sample, and each row corresponds to a reporter.

Passed arguments may be a BioAssaySet (of course) and something holding the information what variable should be exported (e.g. ch1, ch2 or log2ratio).

Change History (14)

comment:1 by Peter Johansson, 16 years ago

Status: new → assigned

comment:2 by Peter Johansson, 16 years ago

(In [3509]) References #639. First non-tested non-generic version of the matrix export method.

comment:3 by Peter Johansson, 16 years ago

(In [3645]) refs #639 stupid version of exportPureMatrix method that simply exports channel 1.

comment:4 by Peter Johansson, 16 years ago

(In [3648]) refs #639 removing the exportPlainMatrix method.

comment:5 by Peter Johansson, 16 years ago

Milestone: BASE 2.4 → BASE 2.5

The interface of this method is not mature enough to be included in the 2.4 release.

comment:6 by Peter Johansson, 16 years ago

(In [3705]) refs #639

comment:7 by Jari Häkkinen, 16 years ago

Milestone: BASE 2.5 → BASE 2.x+
Owner: Peter Johansson removed
Status: assigned → new

comment:8 by Johan Enell, 16 years ago

Milestone: BASE 2.x+ → BASE 2.6

comment:9 by Nicklas Nordborg, 16 years ago

Priority: major → minor

comment:10 by Nicklas Nordborg, 16 years ago

Milestone: BASE 2.6 → BASE 2.x+

This ticket will remain at 2.x unless a proper specification is made.

comment:11 by Jari Häkkinen, 16 years ago

Milestone: BASE 2.x+ → BASE 2.7.1
Owner: set to Jari Häkkinen
Status: new → assigned
Version: trunk → 2.7

comment:12 by Jari Häkkinen, 16 years ago

Description: modified (diff)

Just a note to tell you all that I am working on this now.

comment:13 by Jari Häkkinen, 16 years ago

(In [4318]) Addresses #639. Exporting plain matrix for 1 and 2 channel data.

comment:14 by Jari Häkkinen, 16 years ago

Resolution: → fixed
Status: assigned → closed

changeset:4318 adds functionality to export 2-channel data. ch1/ch2 ratios are exported for 2-channel data, and ch1 intensities are exported for 1-channel data.

The export is not available in the web interface it is merely a convenience export for other plug-ins.

This finalizes the changes made for now, request for improvements such as providing formulas to define what should be exported in the matrix must be made as new tickets or mailing list discussions.

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