# Manipulate and Explore UK Biobank Data

## Documentation for package ‘ukbtools’ version 0.11.3

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

ukbtools-package | ukbtools: Manipulate and Explore UK Biobank Data
icd10chapters | International Classification of Diseases Revision 10 (ICD-10) chapters
icd10codes | International Classification of Diseases Revision 10 (ICD-10) codes
icd9chapters | International Classification of Diseases Revision 9 (ICD-9) chapters
icd9codes | International Classification of Diseases Revision 9 (ICD-9) codes
ukbcentre | UKB assessment centre
ukbtools | ukbtools: Manipulate and Explore UK Biobank Data
ukb_centre | Inserts UKB centre names into data
ukb_context | Demographics of a UKB sample subset
ukb_defunct | Defunct genetic metadata functions
ukb_df | Reads a UK Biobank phenotype fileset and returns a single dataset.
ukb_df_duplicated_name | Checks for duplicated names within a UKB dataset
ukb_df_field | Makes a UKB data-field to variable name table for reference or lookup.
ukb_df_full_join | Recursively join a list of UKB datasets
ukb_gen_excl | Sample exclusions
ukb_gen_excl_to_na | Inserts NA into phenotype for genetic metadata exclusions
ukb_gen_het | Heterozygosity outliers
ukb_gen_meta | Genetic metadata
ukb_gen_pcs | Genetic principal components
ukb_gen_read_fam | Reads a PLINK format fam file
ukb_gen_read_sample | Reads an Oxford format sample file
ukb_gen_rel | Creates a table of related individuals
ukb_gen_related_with_data | Subset of the UKB relatedness dataframe with data
ukb_gen_rel_count | Relatedness count
ukb_gen_samples_to_remove | Related samples (with data on the variable of interest) to remove
ukb_gen_sqc_names | Sample QC column names
ukb_gen_write_bgenie | Writes a BGENIE format phenotype or covariate file.
ukb_gen_write_plink | Writes a PLINK format phenotype or covariate file
ukb_gen_write_plink_excl | Writes a PLINK format file for combined exclusions
ukb_icd_code_meaning | Retrieves description for a ICD code.
ukb_icd_diagnosis | Retrieves diagnoses for an individual.
ukb_icd_freq_by | Frequency of an ICD diagnosis by a target variable
ukb_icd_keyword | Retrieves diagnoses containing a description.
ukb_icd_prevalence | Returns the prevalence for an ICD diagnosis