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There are a few minor technical issues that make it hard to replicate the findings:
The sequence alignments for Influenza B Virus (IBV) are missing from Zenodo, and the JSON grid files are missing from data/iss135/.
The R script iss135.R fail because reordering the metadata rows results in NA values for 36 proteins due to naming mismatches and for 5 proteins due to missing rows in stats files. When glm drops these, the 205 residuals mismatch the 246-element vectors in the plotting functions, which halts execution.
Researchers have to manually filter the dataset to the 205 valid proteins to run the script. The authors should clean up these naming mismatches and provide an executable script.
iss135.Rfail because reordering the metadata rows results in NA values for 36 proteins due to naming mismatches and for 5 proteins due to missing rows in stats files. When glm drops these, the 205 residuals mismatch the 246-element vectors in the plotting functions, which halts execution.