Figure 4: Epitope Maps and confusion matrix with BM5.5 Crystal and sequence inputs

AbEMap can map epitope on a given antigen crystal structure whether the antibody structure is known or not.  The 2 sets of results in this zipped file are pdb files of the 21 antigens in Zhiping Weng's docking benchmark v. 5.5 with their b-factor changed to our protocol's score to reflect the likelihood of each atom being in the epitope when in complex when the respective antibodies are given as A) crystal structure and B) just sequence.

The summary confusion matrix (residue based) for the epitope mapping done by AbEMap on 21 of the new antigens added to BM5.5 with A) antibody crystal structures and B) antibody sequence only as input. The text file contains the True Positive (TP), False Positive (FP), False Negative (FN) and True Negative (TN) counts for each antibody-antigen complex at different residue ranking thresholds (Top1, Top5, Top10, ... Top120). This confusion matrix is used to generate Fig 4.