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0
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0
replies
215
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Imputed data doesn't match directly genotyped APOE genotype
APOE directgenotyping imputation
6 months ago by kl ▴ 10
0
votes
0
replies
267
views
Can you use a polygenic risk score for a trait (e.g., BMI) in association analyses when it doesn't associate with BMI in the sample it is used?
polygenic-risk-score imputation
updated 6 months ago by 44k • written 6 months ago by ▴ 10
0
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0
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703
views
Comment: Comment: Annotating file using bcftools
6 months ago by kl ▴ 10
0
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0
replies
703
views
Comment: Comment: Annotating file using bcftools
updated 6 months ago by 164k • written 6 months ago by ▴ 10
0
votes
1
reply
703
views
Comment: Comment: Annotating file using bcftools
6 months ago by kl ▴ 10
1
vote
5
replies
703
views
Annotating file using bcftools
annotation plink bcftools
6 months ago by kl ▴ 10
0
votes
1
reply
1.0k
views
Comment: Comment: Post-imputation plot
6 months ago by kl ▴ 10
0
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7
replies
1.0k
views
Post-imputation plot
michigan-imputation-server quality-control
updated 6 months ago by 4.5k • written 6 months ago by ▴ 10
0
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0
replies
1.0k
views
Comment: Comment: Post-imputation plot
updated 6 months ago by 147k • written 6 months ago by ▴ 10
0
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1
reply
1.0k
views
Comment: Comment: Post-imputation plot
6 months ago by kl ▴ 10
0
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0
replies
189
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Imputation advice
imputation
7 months ago by kl ▴ 10
0
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0
replies
251
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Heterozygous haploid calls
plink genetics
10 months ago by kl ▴ 10
0
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0
replies
482
views
Comment: Comment: How to perform quality control for sex when there are no variants after threshol
11 months ago by kl ▴ 10
0
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2
replies
482
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How to perform quality control for sex when there are no variants after thresholding for MAF
sex-check
updated 11 months ago by 44k • written 11 months ago by ▴ 10
0
votes
1
reply
811
views
Comment: Comment: Genetic data QC prior to imputation
11 months ago by kl ▴ 10
0
votes
1
reply
500
views
Issue with genetic QC sex check
plink
11 months ago by kl ▴ 10
0
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0
replies
500
views
Comment: Comment: Issue with genetic QC sex check
11 months ago by kl ▴ 10
0
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0
replies
400
views
Negative F statistics for sex check in plink
plink check sex
12 months ago by kl ▴ 10
1
vote
3
replies
811
views
Genetic data QC prior to imputation
imputation
updated 11 months ago by ★ 1.4k • written 12 months ago by ▴ 10
0
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0
replies
1.1k
views
Comment: Comment: SNP IDs
12 months ago by kl ▴ 10
0
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1
reply
1.1k
views
Comment: Comment: SNP IDs
12 months ago by kl ▴ 10
0
votes
1
reply
1.1k
views
Comment: Comment: SNP IDs
12 months ago by kl ▴ 10
4
votes
7
replies
1.1k
views
SNP IDs
SNP
12 months ago by kl ▴ 10
0
votes
1
reply
835
views
Comment: Comment: QC of genetic data
13 months ago by kl ▴ 10
0
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3
replies
835
views
QC of genetic data
PLINK
updated 13 months ago by ★ 3.0k • written 14 months ago by ▴ 10
0
votes
1
reply
1.0k
views
Repeated measures in GWAS and polygenic risk scores analyses
SNP
updated 12 months ago by 12k • written 4.7 years ago by ▴ 10
0
votes
1
reply
2.7k
views
Comment: C: How to perform GWAS using BOLT-LMM iteratively for many phenotypes in bash
4.2 years ago by kl ▴ 10
1
vote
1
reply
1.2k
views
How to incorporate interaction between two alleles in ApoE for Alzheimer's polygenic risk score?
SNP
updated 4.2 years ago by 20 • written 6.0 years ago by ▴ 10
0
votes
1
reply
2.7k
views
Comment: C: How to perform GWAS using BOLT-LMM iteratively for many phenotypes in bash
4.2 years ago by kl ▴ 10
0
votes
1
reply
2.7k
views
Comment: Comment: How to perform GWAS using BOLT-LMM iteratively for many phenotypes in bash
updated 12 months ago by 12k • written 4.2 years ago by ▴ 10
0
votes
7
replies
2.7k
views
How to perform GWAS using BOLT-LMM iteratively for many phenotypes in bash
gene genome
updated 12 months ago by 12k • written 4.3 years ago by ▴ 10
0
votes
0
replies
900
views
Match:0 michigan imputation server output
michigan imputation server
updated 4.3 years ago by 5.9k • written 4.3 years ago by ▴ 10
0
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1
reply
1.4k
views
Comment: C: How can you update vcf when one of the columns is CHR:POS:REF:ALT using bcftools
4.3 years ago by kl ▴ 10
1
vote
3
replies
1.4k
views
How can you update vcf when one of the columns is CHR:POS:REF:ALT using bcftools?
bcftools
4.3 years ago by kl ▴ 10
0
votes
1
reply
3.3k
views
Comment: C: Post-imputation steps (cleaning and converting to plink)
updated 4.4 years ago by 88k • written 4.4 years ago by ▴ 10
0
votes
1
reply
10k
views
Comment: C: michigan imputation server
updated 4.4 years ago by 147k • written 4.4 years ago by ▴ 10
0
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11
replies
3.3k
views
Post-imputation steps (cleaning and converting to plink)
SNP MICHIGAN IMPUTATION SERVER
4.4 years ago by kl ▴ 10
0
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1
reply
3.3k
views
Comment: A: Post-imputation steps (cleaning and converting to plink)
4.4 years ago by kl ▴ 10
0
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2
replies
3.3k
views
Comment: C: Post-imputation steps (cleaning and converting to plink)
updated 4.4 years ago by 44k • written 4.4 years ago by ▴ 10
0
votes
0
replies
3.3k
views
Comment: A: Post-imputation steps (cleaning and converting to plink)
updated 4.4 years ago by 147k • written 4.4 years ago by ▴ 10
0
votes
0
replies
3.3k
views
Comment: A: Post-imputation steps (cleaning and converting to plink)
4.4 years ago by kl ▴ 10
0
votes
0
replies
656
views
Sequence of steps in quality control of genetic data
quality control imputation plink genome
updated 4.4 years ago by 147k • written 4.4 years ago by ▴ 10
0
votes
1
reply
1.2k
views
Can I convert a beta to a standardised beta, only knowing the standard error of the beta without individual-level data?
SNP
4.7 years ago by kl ▴ 10
1
vote
1
reply
1.3k
views
Do you always need to clump polygenic risk scores?
snp
updated 4.8 years ago by ★ 4.8k • written 4.8 years ago by ▴ 10
0
votes
0
replies
1.9k
views
Linkage disequilibrium clumping in plink
LD clumping plink
5.8 years ago by kl ▴ 10
0
votes
1
reply
1.2k
views
Check whether two GWAS are from the same ancestry
allele frequency
updated 5.8 years ago by 88k • written 5.8 years ago by ▴ 10
1
vote
2
replies
1.5k
views
PLINK meta-analysis when there is SNP for just one study
PLINK
updated 5.9 years ago by 12k • written 5.9 years ago by ▴ 10
0
votes
0
replies
1.5k
views
BOLT LMM - invalid heritability estimate error
SNP genome
5.9 years ago by kl ▴ 10
8
votes
6
replies
2.7k
views
How to convert a meta-analysis file from PLINK (.meta) to a .csv or.txt to be read into R?
PLINK R
updated 6.0 years ago by 12k • written 6.0 years ago by ▴ 10
0
votes
1
reply
2.7k
views
Comment: C: How to convert a meta-analysis file from PLINK (.meta) to a .csv or.txt to be re
updated 6.0 years ago by 47k • written 6.0 years ago by ▴ 10
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