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kvittingseerup / IsoformSwitchAnalyzeR

An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
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Error in analyzeSwitchConsequences #170

Closed LetiziaMe closed 1 year ago

LetiziaMe commented 1 year ago

Hi, I used IsoformSwitchAnalyzeR to perform isoform differential analysis and alternative splicing. I was able to predict alternative splicing, but when I tried to perform consequence analysis I encountered this error:

aSwitchListAnalyzed <- analyzeSwitchConsequences(aSwitchListAnalyzed, consequencesToAnalyze = consequenceOfInterest, dIFcutoff = 0.1, showProgress=F) Step 1 of 4: Extracting genes with isoform switches... Step 2 of 4: Analyzing 1586 pairwise isoforms comparisons... | | 0%Error in dplyr::left_join(transcriptData, orfData, by = "isoform_id", : ... must be empty. ✖ Problematic argument: • all.x = TRUE Errore: with piece 1: isoformUpregulated isoformDownregulated comparison 1 ENST00000499762.2 ENST00000648157.1 1

Could you please help me in solving? Thanks a lot Letizia

kvittingseerup commented 1 year ago

Could you check if the previous issue solution works? :-)

LetiziaMe commented 1 year ago

Yes, sorry I missed the previous issue. Now it works!

Thank you!

kvittingseerup commented 1 year ago

Perfect :-)