Extend quality control and standardisation to QTL analysis

[Al-Murphy]

Extend quality control and standardisation to QTL analysis. Following checks are specific to QTL studies and need to be added:

• Allow for duplicated SNPs
• Check effect region/gene region
• Convert genome build of effect region/gene region (I think I have a script for this in R and @bschilder has this function)
• Standardise gene names - eQTLs (orthogene::map_genes might be helpful, it can take in any format (hgnc, ensembl, entrez, etc) and convert them all to one format. Can even take transcript IDs and map them onto standardised transcript IDs or HGNC symbols, same with protein IDs)
• Any QTL specific column headers and what to standardise their names to? (browser eQTL catalogue)