To disentangle and analyze neural pathways estimated from magnetic resonance imaging data, scientists need an interface to select 3D pathways. Broad adoption of such an interface requires the use of commodity input devices such as mice and pens, but these devices offer only two degrees of freedom. CINCH solves this problem by providing a marking interface for 3D pathway selection. CINCH interprets pen strokes as pathway selections in 3D using a marking language designed together with scientists. Its bimanual interface employs a pen and a trackball (see Figure 1), allowing alternating selections and scene rotations without changes of mode. CINCH was evaluated by observing four scientists using the tool over a period of three weeks as part of their normal work activity. Event logs and interviews revealed dramatic improvements in both the speed and quality of scientists’ everyday work, and a set of principles that should inform the design of future 3D marking interfaces. More broadly, ...