Opened 16 years ago

Last modified 16 years ago

#1029 closed task

Write specification for support of files in analysis tree (ie not storing bioassay set data in database) — at Version 4

Reported by: Jari Häkkinen Owned by: Jari Häkkinen
Priority: blocker Milestone: BASE 2.8
Component: core Version: trunk
Keywords: Cc:

Description (last modified by Nicklas Nordborg)

Read the attached file for details.

Things to do:

  • Generate sample MeV files.

At least one each (expression data) for GenePix, Affymetrix, and CGH data. Illumina WG and SNP?

  • Check if there is a module for reading MeV files readily at hand in the MeV project.
  • Examine how data is transformed as Illumina SNP data is analysed.
  • For MeV we need to setup a MeV plug-in in parallel to the MeV extension. The extension makes it possible to add a MeV button to BASE whereas the plug-in is needed to ...
  • Make BASE core accept attachment of files to BioAssaySet and ExtraValues. (Fixed as part of #1050, #1051 and #1052).

Change History (5)

comment:1 by Jari Häkkinen, 16 years ago

Priority: major → blocker

comment:2 by Jari Häkkinen, 16 years ago

Status: new → assigned

comment:3 by Jari Häkkinen, 16 years ago

Description: modified (diff)

Added first draft as attachement, bump the version number and attach the new text if you change the text.

by Jari Häkkinen, 16 years ago

Attachment: files_in_analysis-0.1.txt​ added

comment:4 by Nicklas Nordborg, 16 years ago

Description: modified (diff)

The point about core support in BASE has been fixed by tickets #1050, #1051 and #1052. The other points are really not part of BASE. I think this ticket should be closed and the remaining points added as tickets to the plug-in packages they belong to (MeV and Illumina).

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