subset.ORF | R Documentation |
Subset orfs by filters given
## S3 method for class 'ORF'
subset(
orfs,
minimum.length = 6,
must.be.mod.3.0 = TRUE,
startCodons = c("ATG", "CTG", "TTG"),
stopCodons = c("TAA", "TGA", "TAG"),
fa
)
orfs |
GRangesList of ORFs |
minimum.length |
numeric, default 6 |
must.be.mod.3.0 |
logical, default TRUE |
startCodons |
character vector, default: c("ATG", "CTG", "TTG", "AAG", "AGG") |
stopCodons |
character vector, default: c("TAA", "TGA", "TAG") |
fa |
a FaFile or path to fasta index file |
GRangesList of subset that is valid by filter
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