pyseq-align
Python interface for the seq-align C library, written by Isaac Turner (@noporpoise).
Installation
pip install pyseq-align
To install directly from GitHub,
git clone https://github.com/Lioscro/pyseq-align.git --recursive
cd pyseq-align
pip install .
Usage
Two alignment algorithms are provided: Needleman-Wunsch and Smith-Waterman.
from pyseq_align import NeedlemanWunsch
nw = NeedlemanWunsch()
al = nw.align('ACGT', 'ACGTC')
print(al.result_a) # ACGT-
print(al.result_b) # ACGTC
print(al.score)
from pyseq_align import SmithWaterman
sw = SmithWaterman()
als = sw.align('ACGT', 'ACGTC') # unlike above, this is a list of Alignment's
for al in als:
print(al.result_a, al.pos_a) # ACGT, 0
print(al.result_b, al.pos_b) # ACGT, 0
print(al.score)
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Release files for pyseq-align 1.0.2
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Source distribution (sdist)
| File | Size | Uploaded | |
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| pyseq-align-1.0.2.tar.gz | 272.3 kB | Details |
Release files / pyseq-align-1.0.2.tar.gz
| Download URL | pyseq-align-1.0.2.tar.gz |
|---|---|
| Size | 272.3 kB |
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