User: Abdel

gravatar for Abdel
Abdel340
Reputation:
340
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Location:
Amsterdam
Website:
http://www.tweelingenr...
Last seen:
4 years, 10 months ago
Joined:
8 years, 9 months ago
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Posts by Abdel

<prev • 24 results • page 1 of 3 • next >
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Comment: C: How to filter structural variants in a vcf file on size
... Thank you very much! ...
written 4.9 years ago by Abdel340
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How to filter structural variants in a vcf file on size
... I have a vcf file with structural variants (mainly deletions), and I want to filter out only deletions with a specific size (>10kb for example) and write those deletions to a separate vcf file. How can I do this? ...
vcf deletions structural_variants written 4.9 years ago by Abdel340 • updated 20 months ago by Biostar ♦♦ 20
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Estimating effective population size (Ne) using ~1 million SNPs
... Is there a tool/software package that can compute Effective Population Size (Ne) based on LD in ~200 individuals with ~1 million SNPs? I spent some time trying NeEstimator v2 (http://molecularfisherieslaboratory.com.au/neestimator-soft ), but it turned out this tool does not handle too many genetic ...
effective-population-size ne snp written 5.0 years ago by Abdel340 • updated 3.6 years ago by akang90
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Estimating population divergence time between two subpopulations (2x N~200) using ~1 million SNPs
... Is there a tool/software package that can estimate population divergence time between two subpopulations (both populations have an N of about 200) using ~1 million genotypes SNPs? ...
genome population-divergence snp written 5.0 years ago by Abdel340
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Comment: C: GWAS on dosage data - interaction
... My best-guess genotypes unfortunately don't work as well as my dosage data for some reason... I'll check if plink2 can handle dosage data in this way, thanks! ...
written 5.1 years ago by Abdel340
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Comment: C: GWAS on dosage data - interaction
... It's a linear regression. And Plink unfortunately can't do that... ...
written 5.1 years ago by Abdel340
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GWAS on dosage data - interaction
... Is there a software package for GWASs that can include an interaction effect (SNP x predictor) in the regression using dosage data? ...
gwas interaction snp written 5.1 years ago by Abdel340 • updated 4.4 years ago by Tafelplankje120
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Can Base Pair Positions Change Between Patches Of Builds? (Say Between Grch37.P5 And Grch37.P10)
... Can base pair positions change between patches of builds? Are there for example SNPs or genes that can have different base pair positions between GRCh37.p5 and GRCh37.p10? ...
ncbi genes position snp written 5.3 years ago by Abdel340 • updated 5.2 years ago by deanna.church1.1k
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Comment: C: Linkage Disequilibrium Between Structural Variants (Sequence Data)
... I read the paper, and they talk about their results, but unfortunately there is no description of how they calculated LD... :-( ...
written 6.3 years ago by Abdel340
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Comment: C: Linkage Disequilibrium Between Structural Variants (Sequence Data)
... Yes, I do mean indels! Thanks for the paper! ...
written 6.7 years ago by Abdel340

Latest awards to Abdel

Popular Question 5.1 years ago, created a question with more than 1,000 views. For Where Can I Find The Basepair Positions Of Chromosome Bands?
Appreciated 5.2 years ago, created a post with more than 5 votes. For Where Can I Find The Basepair Positions Of Chromosome Bands?
Popular Question 5.2 years ago, created a question with more than 1,000 views. For Where Can I Find The Basepair Positions Of Chromosome Bands?
Popular Question 5.2 years ago, created a question with more than 1,000 views. For R: Manhattan Plot Of Fst Values Instead Of -Log(P)
Supporter 5.2 years ago, voted at least 25 times.
Student 5.2 years ago, asked a question with at least 3 up-votes. For Bioperl: Running Out Of Memory Using Bio::Popgen::Population
Student 5.2 years ago, asked a question with at least 3 up-votes. For Where Can I Find The Basepair Positions Of Chromosome Bands?
Student 5.2 years ago, asked a question with at least 3 up-votes. For List Of All Known Regulatory Regions In Human Genome

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