Description Usage Arguments Details Value Author(s) See Also Examples
A function to get the number of stretches of contiguous change.
1 | getContiguous(sample, base=sample[1,], margin=1, tol=0.1)
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sample |
A numeric matrix containing values to be compared (e.g. a set of mutant SHAPE traces). |
base |
An optional numeric vector containing the values to which the samples are to be compared (e.g. a wildtype SHAPE trace). Default is the first trace in sample. |
margin |
An optional number indicating if the samples are organized by rows or columns, where 1 indicates rows and 2 indicates columns. Default is 1. |
tol |
An optional number indicating the tolerance for the change. Default is 0.1. |
This function calculates the number of stretches of contiguous change between the base vector and each row (or column) in sample.
A numeric vector of counts
Chanin Tolson
1 2 3 4 5 6 7 8 | #sample data
sample = matrix(sample(1:100), ncol=10)
#normalize
samp_norm = normalize(sample)
#reduce noise
samp_nreduce = reduceNoise(samp_norm, trim=1, high=4)
#get trace difference
contig = getContiguous(samp_norm)
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