filterWhippetEvents {GeneStructureTools} | R Documentation |
Filter out significant events from a whippet diff comparison
filterWhippetEvents(whippetDataSet, probability = 0.95, psiDelta = 0.1, eventTypes = "all", idList = NA, minCounts = NA, medianCounts = NA, sampleTable)
whippetDataSet |
whippetDataSet generated from |
probability |
minimum probability required to call event as significant |
psiDelta |
minimum change in psi required to call an event as significant |
eventTypes |
which event type to filter for? default = |
idList |
(optional) list of gene ids to filter for |
minCounts |
minumum number of counts for all replicates in at least one condition to call an event as significant |
medianCounts |
median count for all replicates in at least one condition to call an event as significant |
sampleTable |
data.frame with sample names and conditions. Only needed if filtering with counts. |
filtered whippet differential comparison data.frame
Beth Signal
Other whippet data processing: coordinates
,
diffSplicingResults
,
formatWhippetEvents
,
junctions
, readCounts
,
readWhippetDIFFfiles
,
readWhippetDataSet
,
readWhippetJNCfiles
,
readWhippetPSIfiles
,
whippetTranscriptChangeSummary
whippetFiles <- system.file("extdata","whippet/", package = "GeneStructureTools") wds <- readWhippetDataSet(whippetFiles) wds <- filterWhippetEvents(wds)