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Fig. 5 | BMC Bioinformatics

Fig. 5

From: LMAP: Lightweight Multigene Analyses in PAML

Fig. 5

Interactive functioning of omap.pl - Final Table. The data shown consists of all ATP8 hypotheses with LRT estimations. All hypotheses were separated and organized from the initial User Table (Fig. 4) using omap.pl. The five LRT columns delimited by the red square, were appended after entering the “plrt 0.05” command (Additional file 2: Figure S7). These columns are always defined in the following order, (i) the LRT comparison (column C13), whose parameter estimates define the following columns; (ii) deltaLnL (column C14), for twice the difference on the lnL scores; (iii) degrees of freedom (df – column C15); (iv) p-value (column C16) and (v) conclusion (column C17), where two acceptance results are possible: H0 (for null models) or H1 (for alternative models). Through this command, LRTs were performed for all selected M0 and TrU paired rows. To improve figure readability, five columns (from C7 to C11) were hidden, with the command “hide C7-11” (Additional file 2: Figure S7). Remaining aspects of this figure are as explained in Fig. 4 legend, except for the current table indication (“Final Table”) in OMAP PROMPT, here showing the letter “F” (in red)

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