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noahhelton98
▴
20
@noahhelton98-24397
Last seen 3.8 years ago
Hi All,
I am looking to analyze differentially retained U12 introns across RNA-seq samples. To do this, I annotated the alternative splicing event "RI" using SUPPA2:
suppa.py generateEvents -i input.gtf -f ioe -e RI -o iPSCTLS2
I did this for all of my samples and to analyze I planned to use psichomics. However, when running the R code prepareAnnnotationsfromEvents, I got this error:
Error in order(events$
Event type
, events$Chromosome, events$Constitutive exon 1 start
, : argument 5 is not a vector
Here is the code I used:
suppaOutput <- 'Suppa_Files/ioe'
suppa <- parseSuppaAnnotation(suppaOutput, types = 'RI', genome = 'CTL')
annot <- prepareAnnotationFromEvents(suppa)
Any suggestions to get this to work?