This directory holds scripts and resources used for preprocessing of scRNA and GWAS datasets, with the purpose of harmonizing preprocessing of input files. Currently these are divided in
- Conversion_gene_names (scripts and reference files pertaining to gene naming system and conversion from one species to another)
- Preprocessing_GWAS (sources of a "standard set" of GWAS summary statistics and scripts to transform these for use with MAGMA or LDSC)
- Preprocessing_scRNA (sources of scRNA data and scripts to put them in a uniform format, scripts for QC)
- Compute_FUMA_mean (scripts used to compute mean as in FUMA implemented in Watanabe et al. 2019)
- FUMA_Celltype_cmd (scripts for FUMA cell type on the command line, implemented step 1 only)