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0
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1
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72
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plink calculating LD using R2 command
plink ld r2 written 6 hours ago by janhuang.cn • 10 • updated 4 hours ago by pfs • 20
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1
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111
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1
answer
GWAS: How to estimate probability of SNP association being result of one specific regulatory element, rather than others in LD
calculus gwas snp ld algorithms written 9 days ago by michael.nagle • 90 • updated 8 days ago by Sam • 2.0k
2
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1
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265
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1
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ld matrix in plink
matrix ld written 5 weeks ago by janhuang.cn • 10 • updated 5 weeks ago by chrchang523 • 2.6k
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2
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370
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2
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Obtain the LD matrix from a list of SNP
snp ld written 9 weeks ago by janhuang.cn • 10 • updated 9 weeks ago by aays • 60
0
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1
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179
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1
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Haploview cannot connect to the internet?
haploview ld written 12 weeks ago by Sheila • 180 • updated 12 weeks ago by Pierre Lindenbaum ♦ 98k
1
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0
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193
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0
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Window and step size for LD-independent SNPs
plink ld snp r2 written 3 months ago by willgilks • 210
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0
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166
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0
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Is there any tool to extract LD SNPs based on any other databases (except 1K database)?
ld snps 1000genome mutations written 3 months ago by bioinforesearchquestions • 90
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190
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0
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Using Plink to calculate LD between loci on different chromosomes
ld plink snp written 4 months ago by jr.azaria • 0
1
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1
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230
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1
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Is it more correct to use r2 or D' for selecting SNPs in LD?
linkage disequilibrium ld written 6 months ago by Milos Pjanic • 20 • updated 4 months ago by Vincent Laufer • 870
2
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2
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354
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2
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LD calculation using LD plugin for VEP
linkage disequilibrium vep ld written 5 months ago by eXpander • 70 • updated 5 months ago by Ben_Ensembl • 340
0
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0
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409
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0
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Paper for Plink LD clumping 'greedy algorithm'
gwas greedy plink ld clumping written 8 months ago by Lou • 0 • updated 6 months ago by Biostar ♦♦ 20
0
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0
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2.5k
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0
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Problems Using R2 (Ld Decay) Command In Plink!
ld plink snp plot written 3.9 years ago by Javier2013 • 100 • updated 6 months ago by Biostar ♦♦ 20
0
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1
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214
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1
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Simulate genotypes based on reference genotypes with same LD structure?
simulate plink ld genotype written 7 months ago by Veera • 60 • updated 7 months ago by Petr Ponomarenko • 2.4k
4
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1
answer
347
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1
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Adding gene diagram to output from snp.plotter
gene diagram ld heatmap written 8 months ago by Vincent Laufer • 870 • updated 8 months ago by cannin • 230
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0
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294
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0
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Locus Zoom issues no error but prints file with no LD information displayed
linkage disequilibrium ld locuszoom written 8 months ago by Vincent Laufer • 870
7
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2
answers
1.8k
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2
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Ld Mapping Using A ~30G File With Perl Script
perl ld written 4.9 years ago by J.F.Jiang • 640 • updated 9 months ago by Biostar ♦♦ 20
4
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2
answers
7.7k
views
5 follow
2
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Plotting Linkage Disequilibrium Decay Across The Genome
snps plink ld plot written 3.9 years ago by Javier2013 • 100 • updated 9 months ago by mpt.gene.93 • 0
1
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1
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522
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1
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Linkage Disequilibrium to Rare SNPs
linkage disequilibrium ld written 17 months ago by Shicheng Guo • 4.5k • updated 10 months ago by Biostar ♦♦ 20
6
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1
answer
816
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1
answer
Vcftools r2 Error: Insufficient sites remained after filtering or No data left for analysis!
vcftools ld r2 written 16 months ago by hellbio • 260 • updated 10 months ago by zhengchenfei • 30
0
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0
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344
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0
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Variant calling and linkage disequilibrium when using de novo assembles
linkage assembly snp assembly-quality ld written 10 months ago by avismirabilis • 40
0
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1
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632
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1
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PLINK: Compute LD from list of SNPs using 1000 Genomes
1000 genomes plink ld written 11 months ago by 8chocinco • 0 • updated 11 months ago by Floris Brenk • 790
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0
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349
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0
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Linkage disequlibrium decay for a haploid fungi
haploid snp ld written 11 months ago by jigarnt • 30
0
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0
answers
356
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0
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Negative and positive linkage disequilibrium
linkage gwas plink ld written 11 months ago by fatima • 10
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0
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385
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0
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Calculate linkage disequilibrium from Hudson's ms simulated binary data
hudson ms software cosi ld r2 written 13 months ago by Mr Locuace • 10 • updated 12 months ago by Biostar ♦♦ 20
3
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3
answers
568
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3
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Making Linkage Disequilibrium blocks from SNPs position for NCBI Build 38
gwas qc ld population study written 14 months ago by Bahar • 40 • updated 14 months ago by chrchang523 • 2.6k
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372
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Is it possible to get LD statistics keeping haplotype in mind?
shapeit haplotype plink ld r2 written 14 months ago by QVINTVS_FABIVS_MAXIMVS • 2.0k
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964
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How to plot LD decay?
ld r2 written 16 months ago by akang • 90
0
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463
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0
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Generalization of the concept of LD to polyallelic variants and / or variants that are within SV and CNV events
sv linkage disequilibrium ld cnv snv written 17 months ago by Vincent Laufer • 870
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0
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732
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0
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Population-wise decay of linkage disequilibrium (LD)
plink ld plot written 18 months ago by akang • 90
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1
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1.1k
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1
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Use LD statistics to find proxy SNP
vcf snp ld written 19 months ago by sabir.saluja • 0 • updated 19 months ago by Veera • 60
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