Biological Background

Scripts

output benchmark file
- weighting function
SCOP
- Benchmark on superfamily instead of family
Documentation
- BLAST
- GO
- Pfam
- SCOP
- benchmark
- roc plot
check all paramters are factored out as parameters to functions
put real protein name in roc plot
roc plot of random proteins
improve main.py
- Expose full interface of GO terms (what to filter etc.)

Maybe

quality check of benchmark (GOTerms) on random proteins

Report

Go trough feedback and deal with minor comments
Fix references
Generate ROC plots
Discuss ROC plots
Think of more results in the report?

Discussion

Rationale about benchmark (SCOP, GOTerms, Pfam, combination)
Discussion about results