deletions | additions       diff --git a/untitled.tex b/untitled.tex  index c3e059c..5a0103b 100644  --- a/untitled.tex  +++ b/untitled.tex 
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\begin{enumerate}  \item Introduction  \begin{enumerate}  \item Area of study: CAN YOU OUTLINE A FEW SUBPOINTS TO HELP PEOPLE SEE WHAT YOU WANT TO SAY HERE? CURRENTLY I HAVE NO SENSE OF IT. Study  \begin{itemize}  \itemGene genealogy  \item  Association study studies with sequence data  \item Sequence Data means rare variants  \item About trees underlying the sequence data (where mutation occurs on tree)  \end{itemize}  \item Brief literature review: CAN YOU OUTLINE THE POINTS YOU WANT TO MAKE IN THE LIT REVIEW? THIS PART IS A CRITICAL B/C IT SETS UP THE NEED FOR THE CURRENT STUDY. FOR EX, THE FACT THAT BURKETT PAPER LOOKED AT POWER TO DETECT SIGNAL IN THE REGION RATHER THAN LOCALIZE IT SHD BE REVIEWED HERE.   \item Purpose of the study 
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\item Sampling case-control data  \end{enumerate}  \item Several popular methods  \item Summary paragraph giving an overview of the different types of methods and the ideas motivating them.  \item Argue in the introduction that we've included true trees in the comparison, even though we won't know them in practice because in principle this should be the best result. (SHD THIS ALSO GO IN THE OUTLINED POINTS FOR THE INTRO???)  \begin{enumerate}  \item Single-variant statistics  \begin{itemize}  \item Exact test of association    \end{itemize}  \item Pooled-variant statistics  \begin{itemize} 
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\item Inferred trees (Blossoc, \cite{Mailund_2006})  \item True trees (MT-rank of the coalescent events, \cite{Burkett_2013})  \begin{itemize}  \item Argue in the introduction that we've included true trees in the comparison, even though we won't know them in practice because in principle this should be the best result. SHDN'T THIS GO IN THE OUTLINED POINTS FOR THE INTRO???  \end{itemize}  \end{itemize}  \end{enumerate}  \end{enumerate}  \item Results   \begin{enumerate}  \item Example dataset  \begin{enumerate}  \item Summary for population and sample  \item LD between rSNVs and others for population 
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\item Joint-modelling statistics  \item Between-class comparison  \end{enumerate}  \item 100 datasets  \end{enumerate}  \item Discussion  \begin{enumerate}  \item Review the purpose of the study 
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\begin{itemize}  \item Put something here  \end{itemize}  \itemWHAT DO YOU THINK ARE  MAIN CONCLUSIONS FROM THE ABOVE EVALUATIONS? THAT TREE_BASED STATS ARE THE WAY TO GO? \item Limitations of the study  \begin{itemize}  \item No population growth  \item No covariates Simple model of disease risk with additive effects and no covariates.  \end{itemize}  \end{enumerate}  \end{enumerate}