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2
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0
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934
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Answer: Answer: Help with allele flip in plink
22 months ago by chrchang523 10k
2
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0
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624
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Answer: Answer: Package for PCA on post-imputation dosage genotype data for GWAS (minimac/Michig
23 months ago by chrchang523 10k
2
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0
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758
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Answer: Answer: How to delete Duplicate snps in plink 1.9
23 months ago by chrchang523 10k
2
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0
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1.1k
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Answer: Answer: Bcftools equivalent of vcftools conversion to ped & map
23 months ago by chrchang523 10k
3
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0
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6.9k
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Answer: Answer: How to determine percentage missing genotypes in VCF/BCF?
24 months ago by chrchang523 10k
0
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1
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2.1k
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Answer: Answer: plink bim file stops at chrM
24 months ago by chrchang523 10k
1
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0
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658
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Answer: Answer: Plink v1.9: Order of SNPs when extracting from file
24 months ago by chrchang523 10k
0
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1
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1.0k
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Answer: Answer: Adding additional covariates to plink logistic regression model on HLA returns p
2.0 years ago by chrchang523 10k
2
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0
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602
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Answer: Answer: Accessing TopMed or 1000g ancestry data (GRCh38)
2.0 years ago by chrchang523 10k
0
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1
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817
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Answer: Answer: How to preserve alleles across plink operations?
2.0 years ago by chrchang523 10k
0
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0
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503
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Answer: Answer: Additive and dominance components for .ped file
2.1 years ago by chrchang523 10k
2
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0
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900
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Answer: Answer: where to find GRCh38 for 1000 Genomes
2.1 years ago by chrchang523 10k
0
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0
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594
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Answer: Answer: Removing specific line number in Plink Map/Ped files
2.1 years ago by chrchang523 10k
2
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0
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1.1k
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Answer: Answer: How to input multiple bed files in plink
2.1 years ago by chrchang523 10k
3
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1
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858
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Answer: Answer: PLINK .ped file from vcf file with 2 alleles
2.1 years ago by chrchang523 10k
2
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1
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2.4k
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Answer: Answer: (Plink) Sex as a covariate: What's the coding for male/female?
2.1 years ago by chrchang523 10k
0
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0
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574
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Answer: Answer: ".glm.firth.hybrid" output file in plink2 does not give correct CASE_ALLELE_CT v
2.1 years ago by chrchang523 10k
0
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2
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3.4k
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Answer: Answer: Computing allele frequencies per individual for a set of SNPs in PLINK
2.1 years ago by chrchang523 10k
1
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0
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1.5k
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Answer: Answer: Plink Error: --recode does not yet support multipass recoding of very large file
2.1 years ago by chrchang523 10k
0
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0
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562
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Answer: Answer: Merging more than two files with plink
2.2 years ago by chrchang523 10k
3
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0
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1.4k
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Answer: Answer: how to convert from hap/legend to VCF
2.2 years ago by chrchang523 10k
0
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0
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4.4k
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Answer: Answer: Plink 2 user error converting .bgen to bcf
2.3 years ago by chrchang523 10k
1
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1
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799
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Answer: Answer: Multiple samples in PLINK
2.3 years ago by chrchang523 10k
0
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0
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703
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Answer: Answer: plink vcf
2.3 years ago by chrchang523 10k
1
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0
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1.2k
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Answer: Answer: Change ALT/REF allele in plink
2.3 years ago by chrchang523 10k
0
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1
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1.3k
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Answer: Answer: Plink2.0 unrecognized flag: --het
2.3 years ago by chrchang523 10k
1
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1
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900
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Answer: Answer: Use plink filter --geno on cases and controls separately, within current analys
2.3 years ago by chrchang523 10k
0
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1
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1.2k
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Answer: Answer: Plink Error
2.3 years ago by chrchang523 10k
0
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0
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1.7k
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Answer: Answer: deflated QQ plot but lambda >1
2.5 years ago by chrchang523 10k
3
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0
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3.8k
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Answer: Answer: Can someone explain PLINK allele REF/ALT management strategy?
2.5 years ago by chrchang523 10k
0
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1
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2.7k
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Answer: Answer: PLINK basic command line usage
2.6 years ago by chrchang523 10k
4
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0
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820
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Answer: Answer: Plink genome flag error
2.6 years ago by chrchang523 10k
0
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0
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1.6k
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Answer: Answer: Plink --merge-list only outputting fam
2.6 years ago by chrchang523 10k
1
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0
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626
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Answer: Answer: Data Storage in Plink Format
2.7 years ago by chrchang523 10k
2
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0
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834
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Answer: Answer: Filter duplicate ID from PLINK file
2.7 years ago by chrchang523 10k
0
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1
reply
2.0k
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Answer: Answer: PLINK --lasso Issue ('Warning: No Phenotypes Present') even with a covar file i
2.7 years ago by chrchang523 10k
1
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1
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3.2k
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Answer: Answer: Problem merging data in plink
2.7 years ago by chrchang523 10k
1
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1
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1.5k
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Answer: Answer: Merge files in Plink
2.7 years ago by chrchang523 10k
0
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0
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1.6k
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Answer: Answer: extract list of SNPs from multiple chr{1:22}.bgen files using plink2
2.7 years ago by chrchang523 10k
0
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1
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1.7k
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Answer: Answer: formatting error: Calculate LD matrix from bgen file
2.7 years ago by chrchang523 10k
0
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1
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2.8k
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Answer: Answer: PLINK ASSOC : Skipping --assoc/--model since less than two phenotypes are prese
2.8 years ago by chrchang523 10k
0
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0
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1.0k
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Answer: Answer: How to obtain subpopulation specific allelic variants from a .vcf file using PLI
2.8 years ago by chrchang523 10k
0
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0
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1.8k
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Answer: Answer: PLINK Error: Too many distinct nonstandard chromosome/contig names.
2.8 years ago by chrchang523 10k
2
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0
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1.1k
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Answer: Answer: How do you update plink bim file to remove 'chr' string?
2.8 years ago by chrchang523 10k
2
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1
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1.3k
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Answer: Answer: PCA for combined set
2.8 years ago by chrchang523 10k
2
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0
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612
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Answer: Answer: What is the logical operator for plink2 --extract-if-info?
2.8 years ago by chrchang523 10k
1
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0
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720
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Answer: Answer: How could I calculate r2 values between a list of SNPs with PLINK?
2.9 years ago by chrchang523 10k
2
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1
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4.1k
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Answer: Answer: Merge bgen,bgen.bgi,and .sample file from uk biobank
2.9 years ago by chrchang523 10k
0
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0
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1.4k
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Answer: Answer: Plink: --keep flag
2.9 years ago by chrchang523 10k
0
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2
replies
813
views
Answer: Answer: Converting plink to GenEpi files
2.9 years ago by chrchang523 10k
440 results • Page 2 of 9
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