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0
votes
5
replies
3.4k
views
relationship between PI_HAT and --king-cutoff coefficient?
plink pihat ibd
updated 11 months ago by 10.0k • written 2.9 years ago by ▴ 180
0
votes
2
replies
822
views
individual-level allele frequencies
allele frequencies clustering plink
updated 20 months ago by 10.0k • written 2.6 years ago by ▴ 180
0
votes
3
replies
2.0k
views
How to calculate genotype concordance, comparing two .vcf files with Picard or SnpSift
picard GenotypeConcordance SnpSift
updated 20 months ago by 153k • written 2.6 years ago by ▴ 180
0
votes
0
replies
391
views
How to calculate power to detect mQTLs?
Illumina power mqtl methylation
24 months ago by anamaria ▴ 180
6
votes
11
replies
761
views
Recommendations for genome-wide genotyping platform, array and data analysis software?
genotyping
2.1 years ago by anamaria ▴ 180
3
votes
3
replies
1.0k
views
How to plot alignment statistics; how many reads are mapped to the genome?
samtools RNA-Seq
2.1 years ago by anamaria ▴ 180
0
votes
0
replies
825
views
How to include BETA and SE in output of METAL
metal beta se gwas metagwas
updated 2.3 years ago by 38k • written 2.3 years ago by ▴ 180
3
votes
2
replies
1.6k
views
How to download HES files from UKBiobank and how to create phenotype file?
ukbiobank
updated 2.4 years ago by • 0 • written 3.7 years ago by ▴ 180
0
votes
0
replies
498
views
how do I create .dat file format for mach2dat software association analysis?
mach2dat associationanalysis dat
updated 2.4 years ago by 38k • written 2.5 years ago by ▴ 180
1
vote
2
replies
708
views
Why different reference panels change the signal for a SNP?
referencepanel hapmap hrc imputation
updated 2.5 years ago by ▴ 720 • written 2.5 years ago by ▴ 180
1
vote
10
replies
958
views
Difference in imputation between platforms and RS names
minimac mach imputation rs snps
updated 2.5 years ago by 84k • written 2.5 years ago by ▴ 180
0
votes
0
replies
1.0k
views
Error: the variance-covaraince matrix V is not invertible in GCTA / genetic correlation
gcta genetic correlation
2.6 years ago by anamaria ▴ 180
0
votes
0
replies
668
views
I/O error when converting Plink files to Merlin format for imputation using MACH?
mega2 imputation mach
updated 2.6 years ago by 20 • written 2.8 years ago by ▴ 180
0
votes
0
replies
486
views
Recommendation for software estimate the relative contribution of eQTLs to the heritability of complex traits
heritability eqtls
2.6 years ago by anamaria ▴ 180
0
votes
3
replies
795
views
Recommendations for software for power analysis of paired sample experiment for RNAseq data
RNAseq power
2.6 years ago by anamaria ▴ 180
2
votes
4
replies
958
views
Interpretation of results from ssizeRNA power analysis
ssizeRNA power
updated 2.7 years ago by ▴ 160 • written 2.7 years ago by ▴ 180
0
votes
0
replies
455
views
Calculating power using ssizeRNA
ssizeRNA genecounts
2.7 years ago by anamaria ▴ 180
1
vote
4
replies
1.3k
views
How to decide which Principal Components are the most correlated with with covariates for plink regression?
covariates principal componets plink regression
updated 2.7 years ago by 84k • written 2.7 years ago by ▴ 180
0
votes
0
replies
375
views
Why ukb_gen_samples_to_remove function takes forever to execute?
ukbtools
2.7 years ago by anamaria ▴ 180
2
votes
2
replies
2.3k
views
extracting SNPs from .vcf file along with CHR and POS
vcftools
updated 16 months ago by 38k • written 2.8 years ago by ▴ 180
1
vote
0
replies
1.2k
views
How to resolve "Error: All remaining samples for --glm phenotype 'pheno' are cases" in Plink?
plink
2.8 years ago by anamaria ▴ 180
1
vote
7
replies
1.3k
views
how do I decide which individuals to remove in plink.genome in IBD analysis?
plink ibd
updated 3.0 years ago by ★ 4.6k • written 3.0 years ago by ▴ 180
3
votes
0
replies
1.5k
views
how to do QC on data imputed on Michigan Imputation Server?
plink gwas imputation
3.0 years ago by anamaria ▴ 180
0
votes
1
reply
994
views
preparing files for imputation on Michigan Imputation Server
imputation Michigan Imputation Server HRC
3.0 years ago by anamaria ▴ 180
1
vote
4
replies
1.8k
views
Hwo to do quality control steps on UKBiobank data?
ukbiobank
updated 3.1 years ago by ★ 4.6k • written 3.7 years ago by ▴ 180
0
votes
0
replies
603
views
how to generate covariance matrices for UKB data?
ukb covariancematrix
3.2 years ago by anamaria ▴ 180
0
votes
1
reply
643
views
How to find which genes from my expression data are eGenes for all tissues in GTEX V7?
gene
3.2 years ago by anamaria ▴ 180
1
vote
0
replies
980
views
How to reduce number of entries in QQ plot?
qq
3.4 years ago by anamaria ▴ 180
5
votes
4
replies
1.2k
views
What is the best tool for doing Quality Control checks on my raw RNA-seq data?
RNA-Seq qc fastqc
updated 3.4 years ago by ▴ 100 • written 3.4 years ago by ▴ 180
1
vote
1
reply
1.6k
views
Issue with renaming METAL output
metal
updated 3.5 years ago by 20 • written 3.8 years ago by ▴ 180
0
votes
0
replies
797
views
How to calculate TPR, true positive rate,for tissue sharing between two different tissues?
tpr
3.5 years ago by anamaria ▴ 180
0
votes
0
replies
1.6k
views
How to format plink2 pheno file?
plink2
3.6 years ago by anamaria ▴ 180
0
votes
0
replies
902
views
What to do with the output of apt-geno-qc?
affymetrix
3.7 years ago by anamaria ▴ 180
0
votes
0
replies
1.1k
views
How to extract phenotype from UKBiobank data?
ukbiobnk
3.7 years ago by anamaria ▴ 180
0
votes
2
replies
1.8k
views
how to perform GWAS on UKBiobank data?
ukbiobank
3.7 years ago by anamaria ▴ 180
3
votes
12
replies
1.7k
views
What software to use to asses phenotypic information from ULBiobank dataset?
ukbiobank
updated 3.7 years ago by ▴ 10 • written 3.7 years ago by ▴ 180
0
votes
0
replies
1.1k
views
How to run apt-geno-qc with call rate and treshold?
Affymetrix
3.7 years ago by anamaria ▴ 180
0
votes
0
replies
664
views
How to determine a list of independat eQTLs?
EQTL R
3.7 years ago by anamaria ▴ 180
0
votes
4
replies
944
views
How to do confidence bounds on False Discovery rate?
R confidence bounds FDR
3.7 years ago by anamaria ▴ 180
0
votes
1
reply
697
views
Resolving issue with ukbtools
ukbtools R
updated 3.8 years ago by 20 • written 3.8 years ago by ▴ 180
6
votes
5
replies
11k
views
How to order bars in barplot in ggplot?
R
updated 3.8 years ago by 11k • written 3.8 years ago by ▴ 180
0
votes
3
replies
706
views
Issues with col2rgb
R
3.8 years ago by anamaria ▴ 180
0
votes
6
replies
1.0k
views
How to scale data between two different platforms: RNA Seq and Illumina
scale normalize R
3.8 years ago by anamaria ▴ 180
2
votes
2
replies
7.7k
views
How do you rbind two data frames with a different number of columns without loosing rownames?
R
updated 3.8 years ago by 38k • written 3.8 years ago by ▴ 180
2
votes
3
replies
1.8k
views
How to run removeBatchEffect function?
limma removeBatchEffect
updated 3.8 years ago by 6.5k • written 3.8 years ago by ▴ 180
4
votes
6
replies
4.2k
views
How do do MDS plot in R?
R
updated 3.8 years ago by 26k • written 3.8 years ago by ▴ 180
8
votes
6
replies
632
views
issue with ifelse statement
R
updated 3.8 years ago by 5.7k • written 3.8 years ago by ▴ 180
1
vote
4
replies
8.6k
views
How to replace rownames in one data frame with column in another data frame
R
updated 3.8 years ago by 11k • written 3.8 years ago by ▴ 180
0
votes
0
replies
1.2k
views
FDR for combined QQ plot
qq FDR
3.8 years ago by anamaria ▴ 180
2
votes
2
replies
621
views
Interpret correlation results
statistics correlation
updated 3.8 years ago by 26k • written 3.8 years ago by ▴ 180
57 results • Page 1 of 2
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