Man pages for ieugwasr
Interface to the 'OpenGWAS' Database API
| afl2_chrpos | Look up allele frequencies and LD scores for 1000 genomes... |
| afl2_list | Retrieve a allele frequency and LD scores for pre-defined... |
| afl2_rsid | Look up allele frequencies and LD scores for 1000 genomes... |
| api_query | Wrapper for sending queries and payloads to API |
| api_status | MR-Base server status |
| associations | Query specific variants from specific GWAS |
| batches | Get list of data batches in IEU GWAS database |
| batch_from_id | Extract batch name from study ID |
| check_access_token | Check if authentication has been maded |
| check_reset | Check if OpenGWAS allowance needs to be reset |
| editcheck | Check datasets that are in process of being uploaded |
| fill_n | Look up sample sizes when meta data is missing from... |
| get_opengwas_jwt | Retrieve OpenGWAS JSON Web Token from .Renviron file |
| get_query_content | Parse out json response from httr object |
| gwasinfo | Get list of studies with available GWAS summary statistics... |
| gwasinfo_files | Get list of download URLs each file (.vcf.gz, .vcf.gz.tbi,... |
| ieugwasr-package | ieugwasr: Interface to the 'OpenGWAS' Database API |
| infer_ancestry | Infer ancestry of GWAS dataset by matching against 1000... |
| ld_clump | Perform LD clumping on SNP data |
| ld_clump_api | Perform clumping on the chosen variants using through API |
| ld_clump_local | Wrapper for clump function using local plink binary and ld... |
| ld_matrix | Get LD matrix for list of SNPs |
| ld_matrix_local | Get LD matrix using local plink binary and reference dataset |
| ld_reflookup | Check which rsids are present in a remote LD reference panel |
| legacy_ids | Convert current IDs to legacy IDs |
| logging_info | Details of how access token logs are used |
| phewas | Perform fast phewas of a specific variants against all... |
| print.ApiStatus | Print API status |
| print.GwasInfo | Print GWAS information |
| select_api | Toggle API address between development and release |
| set_reset | Set the reset time for OpenGWAS allowance |
| tophits | Obtain top hits from a GWAS dataset |
| user | Get user details |
| variants_chrpos | Obtain information about chr pos and surrounding region |
| variants_gene | Obtain variants around a gene |
| variants_rsid | Obtain information about rsid |
| variants_to_rsid | Convert mixed array of rsid and chrpos to list of rsid |
