BOL: Transpose the file coordinates and plot dendrogram in R

BioScripts
Abhimanyu Singh
Transpose the file coordinates and plot dendrogram in R

Transpose the file coordinates and plot dendrogram in R

#Save this as tr.awk
{ 
    for (i=1; i<=NF; i++) a[NR,i]=$i
}
END {
    for (i=1; i<=NF; i++) {
        for (j=1; j<=NR; j++) {
            printf "%s", a[j,i]
            if (j<NR) printf "%s", OFS
        }
        printf "%s",ORS
    }
}

#Run this on command-line to transpose ur file
awk -f tr.awk bbb.txt > bbbout.txt

#Plot in R
tetra <- read.csv("bbbout.txt", header=T, stringsAsFactors = F, sep = "\t", row.names = 1)
hc = hclust(dist(tetra))
plot (hc)

BOL

Abhimanyu Singh

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Transpose the file coordinates and plot dendrogram in R