Rat Genomics Pipeline Rendered - RatXcan Paper Code

Coregulation_across_Tissues_Species

Generate Correlation Matrices for 100 rats - compare predicted Expression across tissues

Natasha Santhanam

Generate Sparsity Figures

we will use this for comparison later

Natasha Santhanam

Heritability_Sparsity Sabrina

For each gene, we calculate heritability from its local GRM. Start with creating list of genes for each of the gene expression file:

natasha.santhanam , Sabrina

RatXcan Tutorial

genotype (plink bed/bim/fam format)

RatXcan analysis Figure 3 to 4

tutorial for running ratxcan given genotype, phenotype, and prediction weights as input

Train brain region predictors with larger genotype file

ratxcan

preliminary definitions