Skip to main content

Table 1 Overall memory usage. Overall memory usage required to process all proteins with a signal peptide in Mb.

From: Decoding HMMs using the k best paths: algorithms and applications

  Probability only Tree-based Matrix-based
k = 100 4 8 290
k = 200 6 13 570
k = 300 7 17 850
k = 400 8 21 1130
  1. This value corresponds to the memory required for the longest protein. 'Probability only' corresponds to a run where no backtracking was performed, 'Tree-based' refers to our tree-based implementation, 'Matrix-based' refers to naive matrix approach.