Bio.SeqUtils.lcc module¶
Local Composition Complexity.
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Bio.SeqUtils.lcc.
lcc_mult
(seq, wsize)¶ Calculate Local Composition Complexity (LCC) values over sliding window.
Returns a list of floats, the LCC values for a sliding window over the sequence.
seq - an unambiguous DNA sequence (a string or Seq object) wsize - window size, integer
The result is the same as applying lcc_simp multiple times, but this version is optimized for speed. The optimization works by using the value of previous window as a base to compute the next one.
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Bio.SeqUtils.lcc.
lcc_simp
(seq)¶ Calculate Local Composition Complexity (LCC) for a sequence.
seq - an unambiguous DNA sequence (a string or Seq object)
Returns the Local Composition Complexity (LCC) value for the entire sequence (as a float).
Reference: Andrzej K Konopka (2005) Sequence Complexity and Composition https://doi.org/10.1038/npg.els.0005260