check_ldsc_format | Ensures that parameters are compatible with LDSC format |
download_vcf | Download VCF file and its index file from Open GWAS |
find_sumstats | Search Open GWAS for datasets matching criteria |
format_sumstats | Check that summary statistics from GWAS are in a homogeneous format |
get_genome_builds | Infer genome builds |
hg19ToHg38 | UCSC Chain file hg19 to hg38 |
hg38ToHg19 | UCSC Chain file hg38 to hg19 |
ieu-a-298 | Local ieu-a-298 file from IEU Open GWAS |
import_sumstats | Import full genome-wide GWAS summary statistics from Open GWAS |
index_tabular | Convert summary stats file to tabix format |
load_ref_genome_data | Load the reference genome data for SNPs of interest |
load_snp_loc_data | Loads the SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 144. Reference genome version is dependent on user input. |
raw_ALSvcf | GWAS Amyotrophic lateral sclerosis ieu open GWAS project - Subset |
raw_eduAttainOkbay | GWAS Educational Attainment Okbay 2016 - Subset |
read_sumstats | Determine summary statistics file type and read them into memory |
sumstatsColHeaders | Summary Statistics Column Headers |
write_sumstats | Write sum stats file to disk |