Man pages for RajLabMSSM/catalogueR
QTL data extraction and colocalization
| catalogueR-package | Rapid querying, colocalization, and plotting of summary stats... |
| check_coord_input | Check coordinates input |
| check_dim | Check data dimensions |
| check_maf | Check MAF |
| COLOC_corplot | Plot summary of coloc tests: heatmap |
| COLOC_get_example_res | Example colocalization results |
| COLOC_get_res | Run coloc on GWAS-QTL object |
| COLOC_heatmap | Plot summary of coloc tests: heatmap |
| COLOC_merge_res | Prepare data for coloc plot |
| COLOC_plot_loci | Faceted Manhattan plots of QTL datasets |
| COLOC_report_summary | Report coloc results |
| COLOC_run | Iteratively run coloc on merged GWAS-QTL datatables |
| ensembl_to_hgnc | Convert ENSEMBL IDs to HGNC gene symbols |
| eQTLcatalogue_annotate_tissues | Annotate QTL datasets with metadata |
| eQTLcatalogue_example_queries | Paths to example eQTL Catalogue query results |
| eQTLcatalogue_fetch | Query eQTL Catalogue |
| eQTLcatalogue_header | eQTL Catalogue tabix header |
| eQTLcatalogue_iterate_fetch | Iterate queries to _eQTL Catalogue_ |
| eQTLcatalogue_list_datasets | List available eQTL datasets |
| eQTLcatalogue_query | Iterate queries to _eQTL Catalogue_ |
| eQTLcatalogue_search_metadata | Search eQTL Catalogue metadata |
| fetch_from_eqtl_cat_API | Fetch from eQTL Catalogue API |
| fetch_restAPI | 2. Query eQTL Catalogue datasets by region |
| fetch_tabix | Query eQTL Catalogue:tabix/echotabix |
| hgnc_to_ensembl | Convert HGNC gene symbols to ENSEMBL IDs |
| merge_files | Merge files from a list of paths |
| merge_gwas_qtl | Merge GWAS with QTL |
| meta | eQTL Catalogue dataset metadata |
