Commit 1a6e7ba5 authored by Vladimir Reinharz's avatar Vladimir Reinharz
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added delta def

parent b91390c4
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We also tested three alternative measures: The first one is $l^2$ norm between the whole profiles of $\Seq$ and $\Seq_i$, to evaluate the global \shape disruption (Fig.~S1); The second is a variant of $\Delta$ which considers the maximally contributing window over the whole sequence (instead of only considering the one centered on $i$ for $\Delta$), and aims at identifying non-local structural rearrangements (Fig.~S2); The third restrains the positions for the $l^2$ norm between $\Seq$ and $\Seq_i$ to the SSE where the mutation lies, in order to assess the local three-dimensional disruption of the \shape profile (Fig.~S3). Although some of these measures showed potential for applications, we only report our analysis on the $\Delta$ measure, whose signal was clearest.
The formal procedure to select mutations from a mutate-and-map (MaM) experiment disrupting the \shape profile over a percentile threshold $\delta$ is shown in Algo.~\ref{algo:mut}
{\color{red}Given a percentile $\delta$ and a mutate-and-map (MaM) experiment, the procedure selects the mutations at position $i$ such that the \shape profile disruption $\Delta(w, w_i)$ is in the $\delta$ percentile of all profile disruptions, as shown in Algo.~\ref{algo:mut}.}
\subsection{Evolutionary Information}
Evolutionary information can be used to witness how nature {\em repairs} non-lethally disruptive mutations to preserve or reestablish a given phenotype/function.
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