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Releases: xieguigang/ManhattanPlot

ManhattanPlot CLI tool

12 Oct 16:44
@xieguigang xieguigang
v1.5
bddf726
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Manhattan plot

wiki: https://en.wikipedia.org/wiki/Manhattan_plot

A Manhattan plot is a type of scatter plot, usually used to display data with a large number of data-points - many of non-zero amplitude, and with a distribution of higher-magnitude values, for instance in genome-wide association studies (GWAS).[1] In GWAS Manhattan plots, genomic coordinates are displayed along the X-axis, with the negative logarithm of the association P-value for each single nucleotide polymorphism (SNP) displayed on the Y-axis, meaning that each dot on the Manhattan plot signifies a SNP. Because the strongest associations have the smallest P-values (e.g., 10−15), their negative logarithms will be the greatest (e.g., 15).

It gains its name from the similarity of such a plot to the Manhattan skyline: a profile of skyscrapers towering above the lower level "buildings" which vary around a lower height.

References

  • Gibson, Greg (2010). "Hints of hidden heritability in GWAS". Nature Genetics. 42 (7): 558–560. doi:10.1038/ng0710-558. PMID 20581876.
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CLI Draw

25 Aug 13:10
@xieguigang xieguigang
v1.0
625db23
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CLI Draw

Test on Linux

This program have been test successfully on the Ubuntu Linux system and Windows10, here is the test script example that you can found in the demo Resources folder:

#!/bin/bash

rm ./manhattan_plot_test_chr.png
rm ./manhattan_plot_test_interval.png
rm ./manhattan_plot_test_SampleName.png

../ManhattanPlot.exe /Draw /in "./manhattan_plot_test.csv" /pt.size 10 /sampleColors "./SampleColors.csv" /colorpattern SampleName
../ManhattanPlot.exe /Draw /in "./manhattan_plot_test.csv" /pt.size 10 /colorpattern chr
../ManhattanPlot.exe /Draw /in "./manhattan_plot_test.csv" /pt.size 10 /colorpattern interval
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