Generating a consensus sequence of a large number of amino acid sequences in python
Hi,
I want to generate a consensus sequence of a large number of amino acid sequences using python.
For example,
If there are three different amino acid sequences:
MAHEDYIG ... HLY
MAAEDYLP ... HLY
MAHEDYIG ... TLY
Then MAHEDYIG ... HLY has to be generated as a consensus sequence.
Could anyone create python code for this algorithm? I want to put FASTA file, which is aligned with Multiple Sequence Alignment tool, in the code and want to put a specific weight for each conserved residue.
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unicorn2kang •
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If I understand you properly you are trying to generate the consensus sequence after running MSA?
See: Consensus sequence software?
Yes! I've used MUSCLE/Clustalw/Clustalomega packages for running MSA but I am struggling with generating consensus sequence since I cannot find any packages for it in python.