User: P.NJ

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P.NJ50
Reputation:
50
Status:
New User
Location:
Germany
Last seen:
5 years, 9 months ago
Joined:
9 years ago
Email:
n*********@hotmail.com

Posts by P.NJ

<prev • 15 results • page 2 of 2 • next >
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Concordance Using Plink
... I am trying to find the concordance for a sample (SOLiD data for a whole genome) against its Array data generated from Illumina 2.5M. To do this, I am using plink, but when I used this command plink --bfile file1 --bmerge file2.bed file2.bim file3.fam --merge-mode 7 --out myfile1vs2 I get Con ...
array solid plink written 9.0 years ago by P.NJ50
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Comment: C: Merge Two Plink Transposed Files
... Hi, I tried this command mentioned above to calculate the concordance rate plink --noweb --bfile file1 --bmerge file2.bed file2.bim file2.fam --merge-mode 6 --out myfile1vs2 but it shows "Concordance rate is nan" -> what does this mean ? Am i going wrong somewhere ? ...
written 9.0 years ago by P.NJ50
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Comment: C: Converting Illumina Raw Genotype Data Into Plink Ped Format
... ahh, okay, I had not changed that... thank you very much. its worked for me as well. ...
written 9.0 years ago by P.NJ50
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Answer: A: Converting Illumina Raw Genotype Data Into Plink Ped Format
... Thank you for your suggestions. But I tried the -lgen format which did not work for me. I tried to create .map, .fam and .lgen file but when I try to run it,the resulting output for my .ped file contains 0 sample_name 0 0 2 1 0 0 0 0 0 ...... I have pasted some of the info from my file formats, ma ...
written 9.0 years ago by P.NJ50
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Converting Illumina Raw Genotype Data Into Plink Ped Format
... Hello, I have the "FinalReport.txt" for Illumina raw genotype data generated from Genome Bead Studio for 2.5M (GSGT Version 1.8.4 ). For my further analysis, I would like to convert this into PLINK format preferably. Is there any way of doing this ? I would appreciate any suggestions. Thank ...
illumina plink conversion genotyping written 9.0 years ago by P.NJ50 • updated 4.0 years ago by forever80

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Popular Question 8.9 years ago, created a question with more than 1,000 views. For Converting Illumina Raw Genotype Data Into Plink Ped Format

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