popDat_1KGphase3: Population metadata: 1KGphase3

In RajLabMSSM/echoLD: echoverse module: LD downloading and processing

Population metadata: 1KGphase3

Description

Individual-level metadata for 1000 Genomes Project (Phase 3).

Usage

data("popDat_1KGphase3")

Format

data.table

Source

popDat_URL <- "ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/release/20130502/integrated_call_samples_v3.20130502.ALL.panel" popDat_1KGphase3 <- data.table::fread(text = trimws(gsub(",\t", ",", readLines(popDat_URL))), sep = "\t", fill = T, stringsAsFactors = F, col.names = c("sample", "population", "superpop", "sex"), nThread = 4) usethis::use_data(popDat_1KGphase3, overwrite = TRUE)

See Also

Other LD: check_population_1kg(), compute_LD(), filter_LD(), get_LD(), get_LD_1KG(), get_LD_1KG_download_vcf(), get_LD_UKB(), get_LD_matrix(), get_LD_vcf(), get_locus_vcf_folder(), ldlinkr_ldproxy_batch(), plot_LD(), popDat_1KGphase1, rds_to_npz(), saveSparse(), save_LD_matrix(), snpstats_get_MAF()

RajLabMSSM/echoLD documentation built on May 12, 2024, 3:23 a.m.