Description Usage Arguments Value Examples
Parse the EFF field of the VCF files from 1001genomes.org
1 | parseEFF(tidyVCF)
|
tidyVCF |
tidyVCF$dat tibble to be parsed. should have an 'EFF' field |
Transcript_ID |
Character string of the transcript ID. if NULL, the function will look for it as the attribute "transcript_ID" of the dataframe |
new tidyVCF object with added columns for the parsed effect fields
1 2 3 4 5 6 7 8 9 10 11 | ## make a gene info DF
geneInfo <- getGeneInfo(genes = c("AT3G62980", "AT3G26810"))
## download a single VCF
myVCF <- VCFByTranscript(geneInfo[1, ])
## Parse the EFF field of a single VCF
myParsedVCF <- parseEFF(myVCF)
## This function can also be applied to a list of VCF files created by the
## `VCFList()` function, see example in the documentation for VCFList()
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