IMPUTE2 reference allele: same as matrixEQTL?
When a dosage file is used for eQTL analysis using matrixEQTL, and the dosage file is with respect to a specific allele (e.g. the allele outputted as reference in IMPUTE2), is this also the reference allele used for the effect size computed in matrixEQTL?
Thanks!
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
software and publicly available datasets for eQTLs?
written by User 7754
-
How to Calcualte "Effect Size" and "Effect Allele" of each SNP
written by Raju •
-
criteria for pvOutputThreshold = 1e-100 in EQTLMATRIX and creation of geneloc.txt for ciseQTL
written by Nai •
-
GTEX effect sizes and violin plots
written by ognjen011
-
SnpMatrix from VCF file
written by Dhana
-
Subset dosage data
written by Veera
-
Is it possible to specify a reference allele while computing LD in Plink?
written by User 7754
-
Output of METAL meta-analysis: which allele does the beta refer to?
written by smnlalli •
-
Expression Quantitative Trait Loci Analysis Using Rpkm In R
written by User 7754
-
Expression Quantitative Trait Loci Analysis Using Rpkm In R
written by User 7754
