Description Usage Arguments Value Author(s) See Also
Function to complete the OutFile name passed to dbtORA with ORA parameters.
1 2 | ORAfilename(OutFile, NrOfValidInputGenes, Correction, PvalueThreshold, MinNrOfGenes,
OnlyManuCur, WithRefSet = FALSE)
|
OutFile |
String; Filename of the output file(s). Will be complemented by the parameters of the ORA. |
NrOfValidInputGenes |
String; Number of valid input genes = #(input genes) - #(duplicated and non-annotated genes) |
Correction |
String; Type of correction for mulitple testing of the p-values. 'BON' for Bonferroni, 'FDR' for False Discovery Rate, 'RAW' if no correction should be done. |
PvalueThreshold |
Numeric; P-value threshold. GO-Terms with p-values greater than PvalueThreshold will be ignored. |
MinNrOfGenes |
Numeric; Minimum number of genes annotated to one Term that is accepted. Only GO terms with more than MinNrOfGenes genes will be considered in calculation. |
OnlyManuCur |
Boolean; Set TRUE if only manually curated gene annotations should be considered. |
WithRefSet |
Boolean; Default: FALSE. Set TRUE if a reference set of genes is used. |
OutFilePlusParams |
String; The complemented OutFile. |
CL
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