User: Hypotheses

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Hypotheses70
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Bangkok, Thailand
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Posts by Hypotheses

<prev • 8 results • page 1 of 1 • next >
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Answer: A: Extract Alignment From Very Large Bam File
... my two-cents If this doesn't work samtools view -h reads.bam 1:1042000-1042010 Try this samtools view -h reads.bam chr1:10420000-10421000 To output to another bam file format samtools view -b reads.bam chr1:10420000-10421000 > subset.bam ...
written 5.3 years ago by Hypotheses70
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Mendelscan Version 1.2.1 Error? 0 Matched With Vep Annotation
... I tried to use MendelScan on a single vcf file. I created VEP file using ensembl variants effect prediction program. I'm not quite sure what caused the errors. The VEP file format looked similar to the file that came with the example data. The example data also ran fine without an errors. I trie ...
written 5.8 years ago by Hypotheses70
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Answer: A: How Can I Get The Human Chromosome Centromere Position And Chromosome Length In
... http://genome.ucsc.edu/FAQ/FAQtracks.html#tracks20 Question: "How do I find the positions of the centromeres and telomeres in a particular assembly?" Response: This information can be found in the "gap" database table. Use the Table Browser to extract it. To do this, select your assembly and t ...
written 6.7 years ago by Hypotheses70 • updated 14 months ago by RamRS25k
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Comment: C: Calculating Ibd Using R Package
... Thank you. I will check it out. I didn't realize that you have already answered my answer quite some time ago. I really need to figure out how to get notified from this forum. ...
written 7.0 years ago by Hypotheses70
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Calculating Ibd Using R Package
... Hi all, Does anyone know whether there is any R package or function to calculate IBD (identity by descent) sharing? I have been trying to search for a solution in Biostar, google, etc, but haven't really found anything. I know that other software such as SOLAR, MERLIN, GENIBD, SIMWALK etc can ca ...
R genetics written 7.2 years ago by Hypotheses70 • updated 6.4 years ago by Biostar ♦♦ 20
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Answer: A: Eigenstrat: Should We Multiply Eigenvector By Sqrt(Eigenvalue) To Form The Pc Ax
... Not sure if I am quite understand your question, but to calculate the score for each individual *i* you do something along this line eigenvec_k' × GENOTYPE_i. And, it is this individual specific score that you would use to adjust for population structure, isn't it? Or, do I mis-understand something? ...
written 7.5 years ago by Hypotheses70
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Comment: C: Easy Way To Change Reference Alleles In Large Vcf File?
... Can you help explain more what you mean by ^# in grep? how does this help changing the reference allele coding? Thank you. ...
written 7.8 years ago by Hypotheses70
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Answer: A: Convert Bed To Vcf4.0
... Daniel, have you found the answer? The only way I found right now is to use plink/seq, but there is some problem with setting the reference-allele that I haven't found the answer yet. ...
written 7.8 years ago by Hypotheses70

Latest awards to Hypotheses

Popular Question 2.2 years ago, created a question with more than 1,000 views. For Mendelscan Version 1.2.1 Error? 0 Matched With Vep Annotation
Popular Question 4.5 years ago, created a question with more than 1,000 views. For Calculating Ibd Using R Package
Teacher 4.5 years ago, created an answer with at least 3 up-votes. For A: How Can I Get The Human Chromosome Centromere Position And Chromosome Length In

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