clustalo-python
This is just a simple Python wrapper around Clustal Omega (http://www.clustal.org/omega/), used internally at Benchling, then modified for easier building by Cyrus Biotechnology.
Support for OSX requires the libomp library, and automake from brew. You may install it via:
``` brew install libomp automake
Usage
from clustalo import clustalo
input = {
'seq1': 'AAATCGGAAA',
'seq2': 'CGGA'
}
aligned = clustalo(input)
# aligned is a dict of aligned sequences:
# seq1: AAATCGGAAA
# seq2: ----CGGA--
At the moment, input sequences are assumed to not be aligned (i.e. there is no
dealign option). See clustalo.clustalo.__doc__ or file clustaslo/clustalo.c
for documentation.