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