findConsensusPeakRegionsValidation {consensusSeekeR} | R Documentation |
findConsensusPeakRegions
functionValidation of all parameters needed by the public
findConsensusPeakRegions
function.
findConsensusPeakRegionsValidation(narrowPeaks, peaks, chrList, extendingSize, expandToFitPeakRegion, shrinkToFitPeakRegion, minNbrExp, nbrThreads)
narrowPeaks |
a |
peaks |
a |
chrList |
a |
extendingSize |
a |
expandToFitPeakRegion |
a |
shrinkToFitPeakRegion |
a |
minNbrExp |
a |
nbrThreads |
a |
0
indicating that all parameters validations have been
successful.
Astrid Deschenes
## Loading datasets data(A549_FOSL2_01_NarrowPeaks_partial) data(A549_FOXA1_01_NarrowPeaks_partial) data(A549_FOSL2_01_Peaks_partial) data(A549_FOXA1_01_Peaks_partial) ## Assigning experiment name to each row of the dataset. ## NarrowPeak and Peak datasets from the same experiment must ## have identical names. names(A549_FOXA1_01_Peaks_partial) <- rep("FOXA1_01", length(A549_FOXA1_01_Peaks_partial)) names(A549_FOXA1_01_NarrowPeaks_partial) <- rep("FOXA1_01", length(A549_FOXA1_01_NarrowPeaks_partial)) names(A549_FOSL2_01_Peaks_partial) <- rep("FOSL2_01", length(A549_FOSL2_01_Peaks_partial)) names(A549_FOSL2_01_NarrowPeaks_partial) <- rep("FOSL2_01", length(A549_FOSL2_01_NarrowPeaks_partial)) chrList <- Seqinfo("chr10", 135534747, NA) consensusSeekeR:::findConsensusPeakRegionsValidation( narrowPeaks = c(A549_FOXA1_01_NarrowPeaks_partial, A549_FOSL2_01_NarrowPeaks_partial), peaks = c(A549_FOXA1_01_Peaks_partial, A549_FOSL2_01_Peaks_partial), chrList = chrList, extendingSize = 110, expandToFitPeakRegion = FALSE, shrinkToFitPeakRegion = TRUE, minNbrExp = 2, nbrThreads = 1)