| annotate_assembly {ballgown} | R Documentation |
match assembled transcripts to annotated transcripts
annotate_assembly(assembled, annotated)
assembled |
|
annotated |
|
If gown is a ballgown object, assembled can be
structure(gown)$trans (or any subset). You can generate a
GRangesList object
containing annotated transcripts from a gtf file using the
gffReadGR function and
setting splitByTranscripts=TRUE.
data frame, where each row contains assembledInd and
annotatedInd (indexes of overlapping transcripts in assembled
and annotated), and the percent overlap between the two transcripts.
Alyssa Frazee
data(bg)
gtfPath = system.file('extdata', 'annot.gtf.gz', package='ballgown')
annot = gffReadGR(gtfPath, splitByTranscript=TRUE)
info = annotate_assembly(assembled=structure(bg)$trans, annotated=annot)