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Table 2 Combination of motif discovery programs based on measures of true positive and false positive nucleotides

From: Promzea: a pipeline for discovery of co-regulatory motifs in maize and other plant species and its application to the anthocyanin and phlobaphene biosynthetic pathways and the Maize Development Atlas

Tools Synthetic data (AM) Semi-synthetic data (AR) Real data (MR) Averages
  nTP nFP nTP nFP nTP nFP Average nTP Average nFP
Bioprospector 995 10668 940 9889 1638 11797 1191 10785
MEME 1503 21861 1134 25832 798 42253 1145 29982
Weeder 2104 86064 2251 74945 1895 53365 2083 99561
Combined 3067 110825 2876 102531 3462 110089 3135 107815
Combined filt. 2813 85186 2676 73534 3078 81756 2856 80159
  1. The Table shows the numbers illustrated in Figure 3A-C. Each value is the average result of three runs for each standalone unfiltered program, as well as the scores after combining the outputs of the three programs without filtering (combined) or with filtering (combined filt).