Visualize PLINK pedigree files Is there a pedigree viewer that works with PLINK pedigree files? I saw an old post by Pierre, but I don't see the script on his blog.
We use kinship2 R package to visualize pedigree files (.fam plink files). For some reasons, some characters from plink ped aren't supported (like "-9" for unknown genre or affected status).
Here is the R script we use:  

args&lt;-commandArgs(TRUE)
pedPath&lt;-args[1]
pdfFile&lt;-args[2]

library(kinship2)
pedfile &lt;- read.table(pedPath,sep="\t")
pedfile$V5 &lt;- apply(pedfile,1,function(data){if(data[5] == 1 || data[5] ==2){data[5]}else{3}}) 
pedfile$affected &lt;- apply(pedfile,1,function(data){if(as.numeric(data[6]) == 1){res &lt;- data[6]}else{if(as.numeric(data[6]) == 2){res &lt;- data[6]}else{res &lt;- NA}}})

familyIDs &lt;- as.character(unique(pedfile$V1))

pdf(file=pdfFile)
for(famID in familyIDs){
    ped &lt;- pedigree(id=as.character(pedfile$V2[pedfile$V1==famID]),dadid=as.character(pedfile$V3[pedfile$V1==famID]),momid=as.character(pedfile$V4[pedfile$V1==famID]),sex=as.numeric(pedfile$V5[pedfile$V1==famID]),affected=as.numeric(pedfile$affected[pedfile$V1==famID]))
    plot.pedigree(ped,cex=0.7,align=TRUE)
    title(famID)
}


And we call it this way:  

Rscript &lt;kinshipScript.R&gt; &lt;plink ped file&gt; &lt;pdf output&gt;