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4
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84
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Genome-wide LD PLINK | empty file for chromosome 24
genome ld plink snp written 8 days ago by Abdel • 20
0
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0
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82
views
0
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Input file LD in Haploview
ld next-gen haploview snp tassel written 4 weeks ago by alesierra28 • 0
0
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0
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83
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0
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How to define the LD interval where a SNP locates?
genetics plink ld written 5 weeks ago by Tao • 260
0
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0
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101
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0
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Haplotype block in PLINK using r2 values
haplotypes snp plink ld written 5 weeks ago by GabrielMontenegro • 440
0
votes
0
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183
views
0
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Understanding LD with tassel results
gwas linkage disequilibrium tassel ld gbs written 6 weeks ago by alesierra28 • 0 • updated 6 weeks ago by Biostar ♦♦ 20
0
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0
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153
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0
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LD pruning before imputation?
snp impute plink ld written 7 weeks ago by whtopjazz • 0 • updated 7 weeks ago by zx8754 ♦ 6.2k
0
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1
answer
146
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1
answer
find LD of list of SNPs, located on different chromosomes
different chromosomes list snps ld written 7 weeks ago by anamaria • 0 • updated 7 weeks ago by toralmanvar • 730
3
votes
1
answer
528
views
1
answer
Simulate genotypes for SNPs, considering MAF and LD structure
maf simulation snp genotype ld written 12 months ago by J.F.Jiang • 730 • updated 8 weeks ago by zx8754 ♦ 6.2k
4
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2
answers
707
views
5 follow
2
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Simulate genotypes based on reference genotypes with same LD structure?
simulate plink ld genotype written 23 months ago by Veera • 90 • updated 8 weeks ago by Shicheng Guo • 7.3k
7
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0
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335
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6 follow
0
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Tutorial: Fast LD computation from VCF files using tomahawk
bcftools ld vcf tutorial snp vcftools written 10 weeks ago by rmf • 500
1
vote
1
answer
172
views
1
answer
HTTP 400 error for select SNPs when using Ensembl Linkage Disequilibrium calculator
ensembl snp ld written 12 weeks ago by Scott • 80 • updated 12 weeks ago by Emily_Ensembl ♦ 16k
0
votes
1
answer
448
views
1
answer
Plink: Understanding LD Clumping vs Pruning
clumping eqtl pruning ld plink written 3 months ago by Werewolf • 10 • updated 3 months ago by Kevin Blighe ♦ 35k
1
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0
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184
views
0
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Prune SNPs in LD with a list of SNPs
snp plink ld written 3 months ago by aritra90 • 20
3
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1
answer
379
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1
answer
VCFtools version for LD calculations specifying bin size
vcftools ld written 4 months ago by Stephanie • 30 • updated 3 months ago by Kevin Blighe ♦ 35k
0
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0
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179
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0
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LD pruning before or after phasing for calculating site frequency spectrum?
snp ld written 4 months ago by Mr Locuace • 80
0
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1
answer
1.5k
views
1
answer
Find all SNPs in linkage disequilibrium
ensembl snp ld written 2.9 years ago by johanne.hh • 0 • updated 4 months ago by RamRS ♦ 20k
0
votes
1
answer
260
views
1
answer
SNPs in high LD after LD pruning
ld snprelate written 4 months ago by Ana • 130 • updated 4 months ago by Kevin Blighe ♦ 35k
2
votes
1
answer
1.0k
views
1
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Paper for Plink LD clumping 'greedy algorithm'
gwas greedy plink ld clumping written 2.0 years ago by Lou • 10 • updated 4 months ago by Biostar ♦♦ 20
0
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0
answers
225
views
0
answers
Error in LDMAP program: Calculating LD units between each SNP on a chromosome
ld-units ldmap C ld written 4 months ago by helpme • 0
0
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0
answers
353
views
0
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How to calculate SNP LD values from haplotype data
haplotype linkage disequilibrium ld snp written 6 months ago by williamtenoriotenorio • 0
0
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0
answers
224
views
0
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r-squared calculation && GAP package error
R snp linkage disequilibrium plink ld written 6 months ago by Mk • 10
0
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0
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215
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0
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Generating random sets of LD-independent SNPs from GWAS and calculating an empirical p-value
snp permutation testing empirical p-value r2 ld written 7 months ago by AB • 0
0
votes
1
answer
305
views
1
answer
How to match alleles for a pair of SNPs using PLINK?
allele matching plink ld written 7 months ago by Tao • 260
1
vote
1
answer
244
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1
answer
How to read a ".ld.bin" file produced by PLINK
R plink ld written 7 months ago by andreagarcia871 • 60
0
votes
1
answer
3.0k
views
1
answer
Use LD statistics to find proxy SNP
vcf snp ld written 2.9 years ago by sabir.saluja • 0 • updated 8 months ago by Biostar ♦♦ 20
4
votes
1
answer
643
views
1
answer
Create linkage disequilibrium file
locusexplorer snp linkage disequilibrium plink ld written 8 months ago by Dhana • 70 • updated 8 months ago by zx8754 ♦ 6.2k
2
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3
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2.9k
views
6 follow
3
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Obtain the LD matrix from a list of SNP
snp ld written 18 months ago by janhuang.cn • 120 • updated 8 months ago by zx8754 ♦ 6.2k
0
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0
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458
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0
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Linkage Disequilibrium calculation
snps ld written 10 months ago by alessandrotestori7 • 330
4
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2
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12k
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6 follow
2
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Plotting Linkage Disequilibrium Decay Across The Genome
snps plink ld plot written 5.2 years ago by Javier2013 • 110 • updated 11 months ago by hfang4 • 0
0
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1
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1.1k
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1
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Negative and positive linkage disequilibrium
linkage gwas plink ld written 2.3 years ago by fatima • 10 • updated 11 months ago by seta • 1.1k
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