Opened 14 years ago

Closed 13 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 Changed 14 years ago by Peter Johansson

Status: newassigned

comment:2 Changed 14 years ago by Peter Johansson

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

comment:3 Changed 14 years ago by Peter Johansson

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

comment:4 Changed 14 years ago by Peter Johansson

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

comment:5 Changed 14 years ago by Peter Johansson

Milestone: BASE 2.4BASE 2.5

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

comment:6 Changed 14 years ago by Peter Johansson

(In [3705]) refs #639

comment:7 Changed 14 years ago by Jari Häkkinen

Milestone: BASE 2.5BASE 2.x+
Owner: Peter Johansson deleted
Status: assignednew

comment:8 Changed 14 years ago by Johan Enell

Milestone: BASE 2.x+BASE 2.6

comment:9 Changed 14 years ago by Nicklas Nordborg

Priority: majorminor

comment:10 Changed 14 years ago by Nicklas Nordborg

Milestone: BASE 2.6BASE 2.x+

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

comment:11 Changed 13 years ago by Jari Häkkinen

Milestone: BASE 2.x+BASE 2.7.1
Owner: set to Jari Häkkinen
Status: newassigned
Version: trunk2.7

comment:12 Changed 13 years ago by Jari Häkkinen

Description: modified (diff)

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

comment:13 Changed 13 years ago by Jari Häkkinen

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

comment:14 Changed 13 years ago by Jari Häkkinen

Resolution: fixed
Status: assignedclosed

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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