Fig. 7
From: Neural representations of cryo-EM maps and a graph-based interpretation
Overview of the creation process of the density map graph. (1) Transpose, if necessary, voxel data in the map to align with a consistent XYZ view. (2) Divide the map into regions of max. \(64\times 64\times 64\) voxels that overlap by no less than four voxels in each axis. (3) Train a SIREN for each region using one or more GPUs in parallel. (4) Patch the regions together such that any input coordinate produces an output by Eqs. 4 and 5. (5) Use the neural cryo-EM format to seed the spatial area with points and iteratively walk the points along their gradients to density peaks. (6) Cluster the points into nodes and connect them based on an adjacency threshold