.. seq:module:: bio.kmer

:seq:mod:`bio.kmer`
-------------------

Source code: `bio/kmer.seq <https://github.com/seq-lang/seq/blob/master/stdlib/bio/kmer.seq>`_

.. seq:extension:: Kmer[k]

   **Magic methods:**

      .. seq:method:: __new__()
         :noindex:

      .. seq:method:: __new__(kmer : Kmer[k])
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      .. seq:method:: __new__(p : Ptr[byte], L : int, b : bool)
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      .. seq:method:: __new__(s : seq)
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      .. seq:method:: __new__(s : seq, rc : bool)
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      .. seq:method:: __new__(s : seq)
         :noindex:

      .. seq:method:: __new__(s : str)
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      .. seq:method:: __new__(n : int)
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      .. seq:method:: __int__()
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      .. seq:method:: __copy__()
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      .. seq:method:: __invert__()
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      .. seq:method:: __getitem__(idx : int)
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      .. seq:method:: __lshift__(s : seq)
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      .. seq:method:: __rshift__(s : seq)
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      .. seq:method:: __sub__(other : Kmer[k])
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                    Hamming distance algorithm:
                      input: kmer1, kmer2
                      mask1 = 0101...0101  (same bit width as encoded kmer)
                      mask2 = 1010...1010  (same bit width as encoded kmer)
                      popcnt(
                        (((kmer1 & mask1) ^ (kmer2 & mask1)) << 1) |
                        ((kmer1 & mask2) ^ (kmer2 & mask2))
                      )
            


      .. seq:method:: __hash__()
         :noindex:

      .. seq:method:: __len__()
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      .. seq:method:: __eq__(other : Kmer[k])
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      .. seq:method:: __ne__(other : Kmer[k])
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      .. seq:method:: __lt__(other : Kmer[k])
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      .. seq:method:: __gt__(other : Kmer[k])
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      .. seq:method:: __le__(other : Kmer[k])
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      .. seq:method:: __ge__(other : Kmer[k])
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      .. seq:method:: __contains__(s : seq)
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      .. seq:method:: __str__()
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      .. seq:method:: __pickle__(jar : Jar)
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      .. seq:method:: __unpickle__(jar : Jar)
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      .. seq:method:: __match__(pattern : str)
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   **Methods:**

      .. seq:method:: len()

      .. seq:method:: as_int()



.. seq:extension:: str

   **Magic methods:**

      .. seq:method:: __prefix_k__[n](s : str)
         :noindex: