wiki:MicroarrayMolgenis

Version 1 (modified by trac, 14 years ago) (diff)

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Place holder for the MAGE-TAB molgenis

Summary

description:Import MAGE-TAB files into molgenis
developers:a.kanterakis, jvelde
homepage:http://magetab-om.sourceforge.net/
svn:http://www.molgenis.org/svn/molgenis-projects/magetab
state:production

Development notes


Parse SDRF

In most SDRF files we have the following adjacent columns:

Hybridization Name | Array Design REF | Term Source REF 

According to the specification of magetab:

Measured and derived data files can be associated with a specific hybridization. In each case, either an “Array Design File” or “Array Design REF” column is needed, referencing either an included ADF file or an identifier in a public repository such as ArrayExpress?, respectively. Note that the repository can optionally be indicated using a “Term Source REF” column: 

The ArrayDesign? object is defined in magetab_adf.xml but it hasn't any suitable xref field in which the "Term Source REF" should be linked. Is it ok to change the specification file (magetab_adf.xml) or there is something that I am missing?