Table 2.

Run time

Data set	BHC-SE	BHC-SE mixture model	Genes	Time points	Replicates
S. cerevisiae 1	6 m 3 s	38 m 49 s	169	17	N/A
S. cerevisiae 2	24 m 8 s	5 h 48 m	440	15	2
H. sapiens	19 s	49 s	58	10	44
E. coli	7 m 6 s	34 m 39 s	200	13	6

Run times of data sets for BHC-SE and BHC-SE with a mixture model likelihood in hours (h), minutes (m) and seconds (s) on a 2.40 GHz Intel Xeon CPU. The run times for BHC-C were very similar to BHC-SE. Using replicate information did not increase the run times. Also shown are the number of genes, time points and replicates for each dataset.