Summarize detected transcript results
detectedTxInfo( detectedTxL, Gene = NULL, Tx = NULL, Groups = NULL, detectedOnly = NULL, ... )
detectedTxL |
|
---|---|
Gene | optional |
Tx | optional |
Groups | optional |
detectedOnly |
* `detectedOnly=NULL` then `Tx` is used as-is. * `detectedOnly=TRUE` and `Tx=NULL` then `Tx` uses all detected transcripts from `detectedTxL$detectedTx`. * `detectedOnly=TRUE` and `Tx` is supplied, it is restricted to detected transcripts from `detectedTxL$detectedTx`. * `detectedOnly=FALSE` and `Tx=NULL` then `Tx` uses all transcripts. * `detectedOnly=FALSE` and `Tx` is supplied, it is used as-is. |
... | additional arguments are ignored. |
list of data.frame
objects, each containing one
summary table of data used to support whether each transcript
were called "detected."
This function provides a simple summary of the results of
defineDetectedTx()
, typically for a given gene of interest.
By default, either Gene
or Tx
must be supplied, however
to return data for all genes, use either detectedOnly=TRUE
to return data only for detected transcripts, or
detectedOnly=FALSE
to return all data including transcripts
that are not determined to be detected.
Other jam RNA-seq functions:
assignGRLexonNames()
,
closestExonToJunctions()
,
combineGRcoverage()
,
defineDetectedTx()
,
exoncov2polygon()
,
flattenExonsBy()
,
getGRcoverageFromBw()
,
groups2contrasts()
,
internal_junc_score()
,
makeTx2geneFromGtf()
,
make_ref2compressed()
,
prepareSashimi()
,
runDiffSplice()
,
sortSamples()
,
spliceGR2junctionDF()