align.motif: function to display the motifs occurring in a set of...

Usage Arguments Examples

View source: R/align.motif.R

Usage

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align.motif(motif, seqlist, lf, rf)

Arguments

motif
seqlist
lf
rf

Examples

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##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

## The function is currently defined as
function (motif, seqlist, lf, rf) 
{
    vec.res <- c()
    for (i in seqlist) {
        vec <- gregexpr(motif, i$sequence)[[1]]
        if (vec[1] == -1) 
            next
        for (k in vec) {
            vec.res <- c(vec.res, substr(i$sequence, k - lf, 
                k + nchar(motif) + rf - 1))
        }
    }
    return(vec.res)
  }

muhligs/Regmex documentation built on Sept. 5, 2020, 1:11 a.m.