Description Usage Arguments Value
View source: R/RNASeqUtilities.R
Input values for parameters 'deg' and 'graphs' must be named deg and graphs. TODO: explore htmltools:knitr_methods to output datatables instead.
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deg |
List of deg results from runDEG. Name of deg element will be used as title |
graphs |
List of graphs from createDEGGraphs. Name of deg element will be used as title |
doSlides |
Boolean: If TRUE then output markdown slides else produce standard markdown. |
onlySigs |
Boolean: if TRUE output only genesets that pass the 'FDRCut' threshold (output message if no significant gene sets) else output all genesets. Default is FALSE. |
cutOnPval |
Boolean: if TRUE use pvalCut for threshold else use FDRCut |
FDRCut |
FDR threshold to use to determine significance. Default is 0.2. |
pvalCut |
P value threshold to use to determine significance. Default is 0.01 |
header |
Character string defining markdown header to ouput for each set of results. This is only used if doSlides=FALSE. |
Vector of markdown strings
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