Add assignEcByOrthologs.pl: transitive EC assignment via ortholog groups#103
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Add assignEcByOrthologs.pl: transitive EC assignment via ortholog groups#103
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Uses group co-membership and shared InterPro family profiles to assign EC numbers to unannotated proteins by majority vote within profile clusters. Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
When --verbose is on, print the reason each EC in a group was not transitively assigned: either subsumed by a more specific EC during hierarchy normalization, or below the majority-vote threshold. Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
Add cluster_mean_length and length_vs_cluster_mean (fractional deviation from cluster mean) columns, plus group-level counts: group_size, n_annotated_in_group, n_supporting_in_group. Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
…format - Read aa_sequence_id directly from file (no identifier lookup needed) - Populate new cluster/group stat columns: num_supporting_cluster, num_protein_cluster, num_any_ec_cluster, num_supporting_group, num_protein_group, num_any_ec_group, length_mean - Map confidence_score -> domain_score, length_vs_cluster_mean -> length_score - Load all rows (both novel and already-annotated) - Remove unused imports and aaSeqLocusTagMappingSql argument Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
Round domain_score and length_score to 4 decimal places, cast length_mean to integer, and explicitly int() all count columns. Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
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Uses group co-membership and shared InterPro family profiles to assign EC numbers to unannotated proteins by majority vote within profile clusters.