User: wondereye

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wondereye0
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Posts by wondereye

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In what situation would it make sense for fine-mapping a region of the associated SNP
... Lets say that in an original GWAS study you find  a SNP in gene to be associated with your trait of interest.  You then preform a follow up study using the original sample used in the original GWAS but this study is using a different phenotype that is similar to the phenotype in the original GWAS st ...
genome gene myposts snp sequencing written 3.6 years ago by wondereye0
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Comment: C: PLINK: Not sure how to go about creating the "mylist.txt" file for the --update
... Thank you so much @karl.stamm. I'm in just learning how to use PLINK. I was hoping to find out if there were any base changes for the SNP but, I'm assuming I can look this up on dbSNP? ...
written 4.6 years ago by wondereye0
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PLINK: Not sure how to go about creating the "mylist.txt" file for the --update-alleles command
... I am trying to recode alleles for my .bim file in PLINK , for example from A,B allele coding to A,C,G,T. My file 1    rs101   0    4566795    A    B 1    rs102   0    4640902    B    A PLINK requires that you use the --update-alleles command ./plink --bfile mydata --update-alleles mylist.txt --ma ...
plink recodealleles command-line written 4.6 years ago by wondereye0 • updated 4.6 years ago by karl.stamm3.4k

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