Description Usage Arguments Value
View source: R/utr5_mrl_prediction.R
predictMRL
Get the 100nt 5' UTR sequence upstream of start codon for transcripts in transcriptIdColumn and predict their MRL
1 | predictMRLInAlt(variantsTable, seqTable, transcriptsTable, transcriptIdColumn)
|
variantsTable |
variants table |
seqTable |
corresponding 5' UTR sequence table from Ensembl DB. Have two columns: ensembl_transcript_id and seq |
transcriptsTable |
transcripts structure table from ensembl with start and end columns for start and end coordinates of the 5' UTR |
transcriptIdColumn |
the name of the transcript id column |
A list predicted MRL (NA if the transcript id in that row is NA). If transcriptIdColumn does not exist in the variantsTable, return NA
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