Ellmen / alcov

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Added make_constellations.py & updated all constellations #28

Closed JennKnapp closed 1 year ago

JennKnapp commented 1 year ago

Lineage list is now pulled from https://raw.githubusercontent.com/cov-lineages/pango-designation/master/lineage_notes.txt

Constellations now include all lineages with >100 sequences (cov-spectrum.org), and each constellation includes nucleotide mutations present in >90% of sequences for that specific lineage, excluding deletions and insertions. These parameters can be changed in make_constellations.py, and applied by re-running this script followed by precompute.py before re-installing.