Description Usage Arguments Value Examples
View source: R/get_genome_annotation.R
get_genome_annotation() This function derives GRanges objects from the GFF3-formatted input file data. The GFF3 input files should be specified by setup_BWASPR().
1 | get_genome_annotation(inputdf)
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inputdf |
A data frame as returned by setup_BWASPR from the input data file. The data frame contains the directories to specific generic features of DNA and the UTRflag. |
A list consisting of GRanges objects that describe generic features of DNA including: gene,exon,pcexon,promoter,CDS,fpUTR,tpUTR, fpUTRnotCDS,tpUTRnotCDS,tpUTRunique,ncexon
1 2 3 4 | mydatf <- system.file("extdata","Am.dat",package="BWASPR")
myparf <- system.file("extdata","Am.par",package="BWASPR")
myfiles <- setup_BWASPR(datafile=mydatf,parfile=myparf)
genome <- get_genome_annotation(myfiles$parameters)
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