Created
June 29, 2021 03:32
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ushuffle python example
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# ref: https://github.com/guma44/ushuffle | |
# ref: https://www.python.org/dev/peps/pep-3112/ | |
# ref: https://pypi.org/project/ushuffle/ | |
from ushuffle import shuffle, Shuffler, set_seed | |
set_seed(12345) | |
seq = bytes('ATTTTCTTTTTTTTTTA', 'ascii') | |
# Note: '2' indicates that the shuffled sequence preserves 2-mer frequency | |
print(shuffle(seq, 2)) | |
# Repeat shuffling | |
shuffler = Shuffler(seq, 2) | |
for i in range(10): | |
seqres = shuffler.shuffle() | |
print("results:", seqres) |
Author
yuifu
commented
Jun 29, 2021
>>> seq = bytes('KTTTTCTTTTTTTTTTA', 'ascii')
>>>
>>> # Note: '2' indicates that the shuffled sequence preserves 2-mer frequency
... print(shuffle(seq, 2))
b'KTTTTTTTTTTCTTTTA'
>>>
>>>
>>>
>>> # Repeat shuffling
... shuffler = Shuffler(seq, 2)
>>> for i in range(10):
... seqres = shuffler.shuffle()
... print("results:", seqres)
...
results: b'KTTTTTTTCTTTTTTTA'
results: b'KTTTTTTTTTTTCTTTA'
results: b'KTTTTTTTTTTTTCTTA'
results: b'KTTCTTTTTTTTTTTTA'
results: b'KTTTTTTTTTTTTCTTA'
results: b'KTTCTTTTTTTTTTTTA'
results: b'KTTTTTTTTTTTCTTTA'
results: b'KTTTTTTTTCTTTTTTA'
results: b'KTTTTTTTTTTTTTCTA'
results: b'KTTTTTTTTTTCTTTTA'
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