formatSequence {dagLogo} | R Documentation |
prepare an object of dagPeptides from sequences
formatSequence(seq, proteome, upstreamOffset, downstreamOffset)
seq |
a vector of character, amino acid sequences |
proteome |
an object of Proteome, output of |
upstreamOffset |
an integer, upstream offset position |
downstreamOffset |
an integer, downstream offset position |
return an object of dagPeptides, which is a list contains: data, peptides, upstreamOffset, downstreamOffset and type information
Jianhong Ou, Julie Zhu
if(interactive()){ dat <- unlist(read.delim(system.file("extdata", "grB.txt", package="dagLogo"), header=F, as.is=TRUE)) proteome <- prepareProteome(fasta=system.file("extdata", "HUMAN.fasta", package="dagLogo")) seq <- formatSequence(dat, proteome) }