Function reference • topr

All functions
`CD_FINNGEN`	Finngen r7 Crohn‘s disease (K11_CROHNS)
`CD_UKBB`	UKBB Crohns disease (ICD 10 code K50)
`R2_CD_UKBB`	Example dataset including the R2 column for the locuszoom plot function
`UC_UKBB`	UKBB Ulcerative colitis (ICD 10 code K51)
`annotate_with_nearest_gene()`	Get the nearest gene for one or more snps
`create_snpset()`	Create a dataframe that can be used as input for making effect plots
`create_snpset_code()`	Show the code/functions used to create a snpset
`effect_plot()`	Create a plot comparing effects within two datasets
`effectplot()`	Create a plot comparing variant effects in two datasets
`flip_to_positive_allele_for_dat1()`	Flip to the positive allele for dataset 1
`get_best_snp_per_MB()`	Get the index/lead variants
`get_gene()`	Get the genetic position of a gene by gene name
`get_gene_coords()`	Get the genetic position of a gene by gene name
`get_genes_by_Gene_Symbol()`	Get the genetic position of a gene by its gene name
`get_genes_in_region()`	Get SNPs/variants within region
`get_lead_snps()`	Get the index/lead variants
`get_overlapping_snps_by_pos()`	Get variants that overlap between two datasets
`get_snps_within_region()`	Get SNPs/variants within region
`get_snpset()`	Create a dataframe that can be used as input for making effect plots
`get_snpset_code()`	Show the code/functions used to get a snpset
`get_top_snp()`	Get the top hit from the dataframe
`get_topr_colors()`	Get the top hit from the dataframe
`locuszoom()`	Create a locuszoom-like plot
`manhattan()`	Create a Manhattan plot
`match_alleles()`	Match the variants in the snpset by their alleles
`match_by_alleles()`	Match the variants in the snpset by their alleles
`match_by_pos()`	Get variants that overlap between two datasets
`qqtopr()`	Create a quantile quantile (QQ) plot
`regionplot()`	Create a regionplot
`topr`	topr

Reference

All functions