pyMSA
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benhid
Scoring multiple sequence alignments with Python
replaced 'is' with '==' for equality between np.str_ and Str check opened issues
### Issue with NumPy array and character comparison When working with rather large sequences, we use NumPy arrays to save memory and make some manipulations faster. However, when using char1...
Hi, thanks for this wonderful library! I'm just wondering that since we have utilities like `read_fasta_file_as_list_of_pairs`, and also `run_all_scores` which runs a comprehensive evaluation, we could write a CLI that...
The tutorial PDF is very helpful, I just noticed some issues in it: * For the Conserved Columns section we have  but I think it should be 1 +...
Just noticing that your formula for entropy doesn't have the negative sign: https://github.com/benhid/pyMSA/blob/570d902bbc214a30f18b93adf735c46836611bf5/pymsa/core/score.py#L84 So an MSA that is high entropy (ie very random) will appear as a large negative number,...