Noi/NOTES/2012-3-24: Difference between revisions

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=== Discussion ===
=== Discussion ===
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* Useful link for Ven diagram by R: http://www.ats.ucla.edu/stat/r/faq/venn.htm

Revision as of 22:32, 3 April 2012

Link to calendar: [[1]]

ASM analysis of UCLA SZ data set

  • Continued from 2012_03_24: [[2]]
  • Plotting the distance between SNP-CpG showing ASM and -log10(p-value)
awk '{print $1"\t"$98}' UCLA_SZ_SeqDep_TTest-noSNP_PVal0.05.txt | sed s'/:/\t/g' | awk '{print $2-$3"\t"$4}' > UCLA_SZ_SeqDep_TTest-noSNP-SNP-CpG_distance_PVal0.05.txt
Note: In UCLA_SZ_SeqDep_TTest-noSNP_PVal0.05.txt file, $2 = SNP position, $3 = CpG position, and $98 = p-value from T-test
  • In excel taking -log(p-value) and plot graph either absolute distance or distance between SNP-CpG

File:SNP-CpG distance-logp-val.png File:AbsSNP-CpG distance-logp-val.png

Discussion

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