--allow-synonymous <Boolean> |
Allow matching of gene name with database identifiers and synonyms (default: false) |
-d, --destination <ClcServerObjectUrl> |
Destination file or folder on server. If not specified the folder of the first input object will be used. |
--exclude-computationally-inferred <Boolean> |
Exclude computationally inferred, uncurated GO terms with evidence code IEA. Terms with evidence code IEA have been automatically annotated, and have not been reviewed by a curator. (default: true) |
--go-annotations-table <ClcObjectUrl> |
Select the GO file |
--go-type <[GO_BIO_PROC, GO_MOL_FUNC, GO_CELL_COMP]> |
Select GO type (default: GO_BIO_PROC) |
-i, --input <ClcObjectUrl> |
Input data on server |
--ignore-case <Boolean> |
If checked, capitalization in feature names will be ignored. For example, if the same gene is called 'Dat' in the annotation file but 'dat' in the statistical comparison track, then they will be matched when this box is checked. However, if 'Dat' and 'dat' represent two different genes, then this box should be unchecked. (default: true) |
--log <Boolean> |
Enable creation of algo log file. (default: true) |
--maximum-pvalue |
|
Double: 0.0 <= x <= 1.0 |
Maximum p-value (default: 0.05) |
--minimum-foldchange |
|
Double: 1.0 <= x < 1.7976931348623157E308 |
Minimum fold change for a feature. (default: 1.5) |
--minimum-maximum-of-means |
|
Double: 0.0 <= x <= 1.7976931348623157E308 |
Only features where the highest group mean RPKM exceeds this limit will be included in the analysis. (default: 5.0) |
--pvalue-type <[P_VALUE, FDR_CORRECTED, BONFERRONI_CORRECTED]> |
The type of p-value to filter on. (default: FDR_CORRECTED) |
