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available genotyping data
dataset simulation genotype plink gwas written 6 hours ago by javadjamshidi • 20
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Manhattan Plot in R with non-numeric CHR values
R ewas manhattan plot gwas written 23 hours ago by cannilay • 10
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Merge VCF file
vcf gatk pca gwas written 1 day ago by devarora • 50 • updated 1 day ago by Pierre Lindenbaum ♦ 126k
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Effect Allele Frequency in base summary statistics for PRSs calculation
polygenic risk scores gwas prs maf prsice written 5 days ago by bigfoot • 0 • updated 4 days ago by Sam • 2.6k
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Effect Allele Frequency (EAF) to Minor Allele Frequency (MAF)
maf gwas genome-wide genetics genomics written 6 days ago by bigfoot • 0 • updated 6 days ago by Kevin Blighe ♦ 54k
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How to simulate 100k samples having 40 million SNPs in a proportion of case:control=30:70?
gwas plink written 8 days ago by b.ambrozio • 20 • updated 8 days ago by zx8754 ♦ 9.0k
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merging vcf files with sample information
vcf gwas written 8 days ago by devarora • 50
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Shapeit2 cannot open reference panel
gwas phasing shapeit2 written 8 days ago by sunnysean • 20 • updated 8 days ago by Kevin Blighe ♦ 54k
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Plink Error in PCA plot
vcf gwas pca plink written 13 days ago by devarora • 50
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Is there a list of high Linkage Disequilibrium (LD) regions for genome Build 38?
gwas gwas qc build 38 ld linkage disequilibrium written 14 days ago by yy237 • 10
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Forum: PhD Bioinformatics on GWAS
genome gwas forum phd snp written 18 days ago by davidenoma • 0
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METAL (gwas meta-analysis tool)
gwas metal meta-analysis genomics bioinformatics written 21 days ago by bigfoot • 0
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Evaluating switch error rate when phasing with Eagle2?
eagle gwas phasing beagle written 25 days ago by curious • 190
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News: Introduction to genome-wide association studies (GWAS)
gwas news unix R bioinformatics written 27 days ago by carlopecoraro2 • 1.4k
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How to find any GWAS associations my genes have
gene gwas associations written 4 weeks ago by arissaoulidis • 0 • updated 4 weeks ago by Kevin Blighe ♦ 54k
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Where did first Manhattan plot appear
gwas manhattan plot written 4 weeks ago by johnS • 0
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Which option is better for variance component estimation in TASSEL?
variance gwas p3d tassel mlm written 5 weeks ago by rimgubaev • 180 • updated 4 weeks ago by Biostar ♦♦ 20
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GAPIT is showing error
gwas gapit written 9 weeks ago by chiti.agarwal • 0 • updated 5 weeks ago by Biostar ♦♦ 20
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1
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QTCAT Quantitative Trait Cluster Association Test problem with reading SNP data
hapmap gwas gapit qtcat written 8 months ago by tauseef.kiani • 0 • updated 5 weeks ago by BioRyder • 160
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Is it ok to use median instead of mean for phenotype data in GWAS studies?
gwas phenotype data association written 5 weeks ago by rimgubaev • 180
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GWAS summary statistics
gwas written 2.5 years ago by iti.gupta • 10 • updated 5 weeks ago by Jeremy Leipzig ♦ 19k
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Meta-analysis using Genome-Wide Association Meta-Analysis (GWAMA) tool
gwas meta-analysis snp written 5 weeks ago by Star • 20
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How do BOLT and SAIGE calculate LD?... with PLINK LD?
gwas bolt saige plink written 5 weeks ago by syntax • 50
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How to get the fine-mapped SNPs associated with risk loci
fine-mapped gwas snps breast cancer written 6 weeks ago by ben.kunfang • 10
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Caclulate effect estimates and SE from Z scores
gwas meta-analysis R written 3.0 years ago by muralinmars • 80 • updated 7 weeks ago by atlas.akhan • 0
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Phased genotype hapmap3 data encoded as 0 1.
gwas plink snp hapmap3 written 4 months ago by nastasia • 10 • updated 8 weeks ago by Biostar ♦♦ 20
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Hardy Weinberg Equilibrium in GWAS
genome gwas hardy-weinberg snp written 8 weeks ago by ctdarwell • 0 • updated 8 weeks ago by Kevin Blighe ♦ 54k
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Mendelian randomisation and covariates
genome gwas mr mendelianrandomisation snp written 9 weeks ago by rednalf • 60
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chromosome X and Y GWAS results
gwas X Y written 9 weeks ago by Floris Brenk • 900
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What is optimal distance to scan for genes near SNPs for pathway overrepresentation analysis?
pathways snpeff pathway analysis snp gwas written 10 weeks ago by rimgubaev • 180
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