Differential expression across different timepoints and fates forward in time

[matthieuheitz]

• Run diff exp across different timepoints, for the same group of cells. Add a parameter to compare all combinations of timepoints. Example:

  generate_comparisons(["A","B"], "all_times", [1,2,3,4]):
  [(('A','A',),(1,2)),
  (('A','A',),(1,3)),
  (('A','A',),(1,4)),
  (('A','A',),(2,3)),
  (('A','A',),(2,4)),
  (('A','A',),(3,4)),
  (('B','B',),(1,2)),
  (('B','B',),(1,3)),
  (('B','B',),(1,4)),
  (('B','B',),(2,3)),
  (('B','B',),(2,4)),
  (('B','B',),(3,4))]

• Compute fates forward in time: Add flag to also compute fates forward in time.