Update `graphml_builder` to use effect size for node phenotypes and clarify edge annotation

[akikuno]

📋 Description

This issue proposes two updates to graphml_builder in TSUMUGI to improve the clarity and interpretability of the generated GraphML.

Proposed changes

• Use effect size information for node phenotype annotations.
• Rename the edge annotation key from weight to phenotype_similarity_score to make its meaning explicit.

Motivation

Currently, the node phenotype annotation does not fully reflect the available effect size information, and the edge attribute name weight is too generic. These changes will make the GraphML output more informative and self-explanatory.

🔖 TSUMUGI Version

1.0.2

📎 Anything else?

Thanks @kinari-labwork for reporting the issue!

[akikuno]

It may be a good idea to incorporate effect_size intopairwise_phenotype_similarity.jsonl.gz.