Updated README

Author: rohitharavinder

code/README.md

@@ -15,4 +15,13 @@
 13. [uniref_api.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/uniref_api.py)
 14. [filter_uniref_clusters.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/filter_uniref_clusters.py)
 15. [parse_uniref.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/parse_uniref.py)
-16. [get_cluster_index.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/get_cluster_index.py)
+16. [get_cluster_index.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/get_cluster_index.py)
+17. [generate_pairs.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/generate_pairs.py)
+18. [recall.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/recall.py)
+19. [cosine_similarity_allpairs.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/cosine_similarity_allpairs.py)
+20. [parse_fasta.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/parse_fasta.py)
+21. [elastic_blast.ini](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/elastic_blast.ini)
+22. [blast.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/blast.py)
+23. [score_matrix.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/score_matrix.py)
+24. [plot.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/plot.py)
+25. [analysis.py](https://github.com/zbmed-semtec/protein-function-embeddings-thesis/blob/main/code/analysis.py)