User: sjunlee89

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sjunlee890
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Posts by sjunlee89

<prev • 14 results • page 1 of 2 • next >
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Comment: C: Why should the LD plot (LD heatmap) be created in control samples, not cases?
... Thank you for your reply! ...
written 5 days ago by sjunlee890
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Comment: C: What is the reference snp and alternative snp in dbsnp window?
... Thank you for your reply! ...
written 5 days ago by sjunlee890
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What is the reference snp and alternative snp in dbsnp window?
... When I searched SNP "rs2976396" in dbsnp and the result is below. rs2976396 [Homo sapiens] GTGGACTGAGTAGAACTGGAGGACA[A/G]GAGTCGACGTGAGTTCCTGGGAGTC Alleles G>A What is the reference SNP and alternative SNP? I would like to know how to interpret this. Thanks advanced. ...
tool snp written 5 days ago by sjunlee890 • updated 5 days ago by ATpoint12k
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Comment: C: Why should the LD plot (LD heatmap) be created in control samples, not cases?
... I'm sorry to say that I am not familiar with GWAS analsys. I read that the figures' descriptive in some of papers says "~~LD plots in ~~ controls". I would like to know what you said that "it depends on the analysis that you are doing." Thanks advanced. ...
written 5 days ago by sjunlee890
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Comment: C: Why should the LD plot (LD heatmap) be created in control samples, not cases?
... Thank you so much for your comment. Is there any specific reason why LD plot should be created in control samples? ...
written 15 days ago by sjunlee890
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Why should the LD plot (LD heatmap) be created in control samples, not cases?
... I would like to create the LD plot (LD heatmap) based on GWAS result. On the other hand, I read that the LD plot should be made in control samples, not cases. Is there any specific reason why the LD plot only comes from control samples? Thanks advanced. ...
snp written 19 days ago by sjunlee890
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Comment: C: How to generate MAP file?
... Thank you so much for your comment. ...
written 21 days ago by sjunlee890
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How to generate MAP file?
... I have .bim, .bgen, pgen, .fam files for analysis GWAS. I would like to generate .map file to use Haploview software to make LD heatmap. On the other hand, I have no idea how to make map file from .bim, .bgen, .pgen, .fam files. Could you explain the process by plink or plink2. Thank you advance ...
snp written 22 days ago by sjunlee890 • updated 22 days ago by Kevin Blighe35k
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Comment: C: How to run locuszoom in Ubuntu 16.04
... Thank you for your reply. It works very well. ...
written 26 days ago by sjunlee890
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How to run locuszoom in Ubuntu 16.04
... I would like to run locuszoom in Ubuntu 16.04 the code as I ran is below. mkdir locuszoom && cd locuszoom wget https://statgen.sph.umich.edu/locuszoom/download/locuszoom_1.4_srconly.tgz tar -zxvf locuszoom_1.4_srconly.tgz cd locuszoom_1.4_srconly.tgz/ cp locuszoom /usr ...
software error written 26 days ago by sjunlee890 • updated 26 days ago by ATpoint12k

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