Command: segment

Segment a .ccf file using Bayesian blocks

Required parameters:

  • -i, –input INPUT: Input .ccf file

  • output: Output file (BED format)

Optional parameters:

  • –prior PRIOR: Explicit prior on the number of blocks (not recommended for general use)

  • –p0 P0: Empirical prior based on a specified false-positive rate; must be between 0 and 1 (default: 0.05)

  • –method {OP,PELT}: Segment using the optimal partitioning (OP) or pruned exact linear time (PELT) algorithm (default: PELT)