12_LDreport.rnw

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\title{Linkage Distribution Analysis report}


\author{Vikas Gupta, Niraj Shah and Stig U. Andersen}

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Haploview \url {http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/haploview/haploview} has been used to detect correlation between all possible pairs of SNPs with given window size, for example 500 Kb.

<<SNP destribution Sliding Window>>=

d <- read.table('~/Desktop/temp/1kb.ld', header = T)
head(d)
plot(d$L1, d$L2)

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\section{Introduction}


\section{WorkFlow}

\section{Plotting}


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