Man pages for wuxi-nextcode/topR
Create custom plots for viewing genetic association results using ggplot
| annotate_with_nearest_gene | Get the nearest gene for one or more snps |
| CD_FINNGEN | Finngen v5 Crohn‘s disease (CHRONSMALL) |
| CD_UKBB | UKBB Crohns disease (ICD 10 code K50) |
| create_snpset | Create a dataframe that can be used as input for making... |
| create_snpset_code | Show the code/functions used to create a snpset |
| dat_column_check_and_set | dat_column_check_and_set |
| effect_plot | Create a plot comparing effects within two datasets |
| ENSEXONS | Ensembl exons build 38 |
| ENSGENES | Ensembl genes build 38 |
| flip_to_positive_allele_for_dat1 | Flip to the positive allele for dataset 1 |
| get_best_snp_per_MB | Get the top SNP per 10 MB |
| get_gene | Get the genetic position of a gene or genes by their gene... |
| get_genes_by_Gene_Symbol | Get the genetic position of a gene or genes by their gene... |
| get_overlapping_snps_by_pos | Get variants that overlap between two datasets |
| get_snps_within_region | Get SNPs/variants within region |
| get_topr_colors | Get the top hit from the dataframe |
| get_top_snp | Get the top hit from the dataframe |
| locuszoom | Locuszoom plot |
| manhattan | Manhattan plot |
| match_alleles | Match the variants in the snpset by their alleles |
| pipe | Pipe operator |
| qqtopr | QQ Plot |
| regionplot | Region plot |
| UC_UKBB | UKBB Ulcerative colitis (ICD 10 code K51) |
