Context sensitive help pages

Error Message Help Pages

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ERROR CODE #	DESCRIPTION	ENTER URL AFTER CREATING
error_1001	None of the gene sets passed the size thresholds	Done.
error_1002	Chip parameter must be specified as you asked to analyze in the space of gene symbols. Chip is used to collapse probes into symbols.	Done. Suggestions: Analyze in gene symbol space on: Pick the chip that corresponds to probe identifiers used in your expression dataset. This chip annotation will be used to automatically map your dataset into gene symbols Analyze in native space: You no longer will be required to enter a chip parameter. Use this option only if your dataset and gene sets already match (i.e no symbol conversions will be done)
error_1010	As the phenotype choosen was categorical, only categorical metrics are allowed. Got: " + metric.getName(), 1010	Done.  list of categ metrics from the chooser
error_1011	As the phenotype choosen was continuous, only continuous metrics are allowed. Got: " + metric.getName(), 1010	Done.   list of cont metrics from the chooser

 

Help Buttons

This is a listing of the context sensitive help buttons needed.

1) Create a page in the Wiki named the same as the code key
2) Fill it with relevant content even if its a duplication (orcondensed form) of user manual content.
3) Do not add these pages to the navigation menu

Code keys are now bookmarks in the doc (periods replace with underscores).
Root is http://wwwdev.broad.mit.edu/gsea/doc/GSEAUserGuideFrame.html.
 

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CODE KEY	DESCRIPTION	ENTER URL AFTER CREATING
chip	meaning of the chip parameter
chip_target	meaning of the chip_target parameter
chip_source	meaning of the chip_source parameter
grp	meaning of the grp parameter	where's this help button? In places where one can choose a single gene set Not used in app; no help
res	meaning of the res parameter	where's this help button? The dataset in GSEA for example (any place where a dataset is needed, the parameter is called -res) Not used in app; no help
gmx	meaning of the gmx parameter
cls	meaning of the cls parameter
on_the_fly_phenotype	ctx help for the on the fly template chooser
gene_profile_phenotype	ctx help for the gene profile chooser
gsea_preferences_widget	ctx help for gsea prefs screen
post_hoc	main help the leadingf edge screen
msigdb_browser	main help for the gene sets browser
xtools.gsea.Gsea	help for the gsea tool
xtools.gsea.GseaPreranked	help for the gsea preranked tool
xtools.munge.CollapseDataset	help for the collapse dataset tool
xtools.chip2chip.Chip2Chip	help for the chip2 chip tool