Example data used in tutorial of HEIG (v1.2.0)

The repository contains example data used in tutorial of HEIG v1.2.0. Note, this data is not compatible with v1.0.0, and some options are supported in v1.1.0. HEIG is a statistical framework for efficiently conducting joint analysis for large-scale imaging and genetic data.

The dataset has the following file structures:

input

images1: 500 simulated images

images2: 500 simulated images

genotype: genotype data in PLINK bfile

misc: miscellaneous files

ldr_sumstats: 19 LDR GWAS summary statistic files of the superior fronto-occipital fasciculus

ld_regu8580: LD matrices with regularization {85%,80%}, including ~460,000 genotype array SNPs

ld_regu7570: LD matrices with regularization {75%,70%}, including ~460,000 genotype array SNPs

visualization: example files for visualization

output

fpca: results of functional PCA

genotype: hail.MatrixTable of genotype data

gwas: LDR GWAS results generated by HEIG

herigc: results of heritability and (cross-trait) genetic correlation analysis

images: preprocessed 1000 images in H5DF file

ldr: LDRs constructed from 1000 images

sumstats: preprocessed 19 LDR GWAS summary statistic files of the superior fronto-occipital fasciculus

visualization: visualization results

voxelgwas: voxel-level GWAS results

The results in ouput are produced by data in input, which can verify if the user runs the code correctly.