deletions | additions       diff --git a/Correcting read depth and GC.tex b/Correcting read depth and GC.tex  index 0764d01..ba50c42 100644  --- a/Correcting read depth and GC.tex  +++ b/Correcting read depth and GC.tex 
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\subsubsection{GC content}  GC content also affects read depth, with a relationship that varies across samples \cite{Pickrell2010; Benjamini2012}. For example, in some samples, high GC content regions have high read depth, while in other samples they have low read depth. To account for this variation, we add GC content terms to the model of adjusted total read depth, $T^{*}_{ij}$. These terms are modeled with a log linker so that $T^{*}_{ij}$ is guaranteed to be positive. After fitting this model, as described below, model  we can calculate an adjusted total read depth for each region that takes into account both the GC content variation and the total read depth variation. \subsubsection{Fitting adjustment coefficients}