Template Generation
The first step in the RTA workflow is template generation, which defines the position of each cluster in a tile using X and Y coordinates.
Template generation requires image data from the first five cycles of the run. After the last template cycle for a tile is imaged, the template is generated.
To detect a cluster during template generation, there must be at least one base other than G in the first five cycles. For any index sequences, RTA v2 requires at least one base other than G in the first two cycles.
The template is used as a reference for the subsequent step of registration and intensity extraction. Cluster positions for the entire flow cell are written to cluster location (*.locs) files, one file for each lane.
