basilisk and hail


[Up] [Top]

Documentation for package ‘BiocHail’ version 1.4.0

Help Pages

as.data.frame S3 support
as.data.frame.default S3 support
as.data.frame.hail.table.Table convert hail.table.Table to R data frame
bare_hail bare interface to hail using reticulate
colnames-method extract field names from hail.table.Table
filter s3 support
filter.hail.table.Table filter rows of a hail Table
get_1kg interface to 1kg import
get_key S3 generic for get_key
get_key.hail.table.Table S3 method for get_key
get_ukbb_sumstat_10kloci_mt interface to a small subset of UKBB summary stats in MatrixTable format
hail_init initialize hail, using more options
hail_init_simple initialize hail
hail_stop stop hail
kg_3202 data.frame with metadata about 3202 samples genotyped against T2T reference
multipop_df pheno_data component harvesting from columns of summary stats MatrixTable allowing for info on multiple populations in the pheno_data component
osn_1kg_path Open Storage Network path to a zip of hail MatrixTable with some 1kg data for the Hail.is GWAS tutorial
osn_ukbb_sumst10k_path Open Storage Network path to a zip of hail MatrixTable with a small subset of UKBB summary statistics as of 12/25/2022
path_1kg_annotations generate path to installed annotations file
pcs_191k HWE-normalized PCA scores for 3202 thousand-genomes samples genotyped with the telomere-to-telomere reference
pcs_38k HWE-normalized PCA scores for 3202 thousand-genomes samples genotyped with the telomere-to-telomere reference
pheno_data_sec_2df pheno_data component harvesting from columns of summary stats MatrixTable
rg_update update the reference genome for a hail instance
rownames-method acquire row names of a Hail Table, assuming key has been set
top2df top-level annotation harvesting from columns of summary statistics MatrixTable
ukbb_init initialize ukbb