Mercurial > repos > miller-lab > genome_diversity

annotate population_structure.r @ 5:8a1147101f85

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added 3rd party software
author Richard Burhans <burhans@bx.psu.edu>
date Tue, 10 Apr 2012 12:49:47 -0400
parents 2c498d40ecde
children
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1 library(RColorBrewer)
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3 args = commandArgs(trailingOnly=TRUE)
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4 q_file = args[[1]]
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5 output_file = args[[2]]
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6 populations = args[[3]]
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8 tbl <- read.table(q_file)
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10 if ( populations >= 3 && populations <= 12 ) {
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11 colors = brewer.pal(populations, 'Paired')
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12 } else {
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13 colors = rainbow(populations)
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14 }
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16 pdf(file=output_file, onefile=TRUE, width=7, height=3)
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17 barplot(t(as.matrix(tbl)), col=colors, xlab="Individual #", ylab="Ancestry", border=NA)
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19 dev.off()