Changes between Version 2 and Version 3 of xQTLBioinformaticianTag

Timestamp:

2011-09-06T16:15:35+02:00 (13 years ago)

Author:

jvelde

Comment:

--

xQTLBioinformaticianTag

@@ -3 +3 @@
 = [wiki:xQTL xQTL workbench] - Tag data and configure parameters =
 
-explain how data matrix tagging works:
+=== What is tagging ===
 
-* automatic through Import Data (pheno/geno, R/qtl)
-* using a helper plugin: Settings -> Utilities -> Matrix wizard
-* or manual with Add analysis -> Configure datasets -> Datanames / Datavalues
+Data matrices must be linked to an analysis before they can be selected when starting to run this analysis. This happens in the ''DataSet'' part of the analysis.
 
-explain how params work
+* Analysis: the complete definition an an analysis, including data, parameters and function call.
+* ''has one'' DataSet: the wrapper for a set of data which can be used in this analysis. (can be shared across analyses) For example: 'Rqtl_data'.
+* ''has multiple'' DataNames: the 'types' of data used. For example: 'genotype' and 'phenotype'.
+* ''has multiple'' DataValues: the cross references to datamatrices which are applicable to this type of data. For example, for 'genotype' -> 'bxd_geno', "bxd_geno_corrected", "yeast_geno_2011", "mygenotypes", etc.
 
-Add analysis -> Configure parameters -> Parameternames / Parametervalues
+=== How do you tag ===
+
+* Automatically through the ''Import Data'' plugin in the case of QTL data. An uploaded phenotype matrix named 'humanGeno' is tagged as 'Rqtl_data' -> 'genotype' -> 'humanGeno'.
+* Easily with a helper plugin called ''Matrix wizard''. Found under ''Settings'', click ''Utilities''. This presents you with an overview of matrices and possible tags, which can be applied in one click.
+* Manually by using the menu ''Add analysis''. Select ''Configure datasets'' and configure ''Datanames'' and ''Datavalues''.