Figure 3.

(A) Four examples of compartment geometry supported by rxd. In NEURON, the dendritic cross-section is approximated as a circle. The red colored areas correspond to the portion of the cross-section described by the given geometry. FractionalVolume is the most general and is intended for cases where the region occupies a complexly-shaped subset of the cross-section. (B) These classes (blue) implement the rxd.geometry.RxDGeometry interface; users may extend rxd with new geometries by writing new classes that implement the same interface. (C) Named Species (e.g., ca) living in a Region with nrn_region=‘i’ map to concentrations in NMODL's inside region (e.g., cai). Similarly, ‘o’ maps to NMODL's outside region.