allele_distribution | Geographic distribution of alleles |
calculate_VE | Calculate Variance Explained for Significant SNPs |
cegwas_map | cegwas_map |
fetch_id_type | Fetch Variant Type |
find_peaks | Find Peaks from GWAS Peaks |
fine_map_plot | Fine mapping plot of GWAS confidence interval |
generate_kinship | Generate Kinship |
generate_mapping | Generate Mapping variant set |
gene_variants | Plot variants for gene |
get_db | Get Database |
get_vcf | Generate directory path to VCF file |
gwas_mappings | GWAS Mappings |
identify_CI | Identify confidence intervals associated with QTL. |
interval_summary | Interval Summary |
kinship | kinship |
manplot | Manhattan Plot for GWAS Mapping Data |
plot_peak_ld | Plot LD values for significant SNPs in a mapping |
process_correlations | Combine Variant Correlation Data |
process_mappings | Fully process GWAS mapping output |
process_pheno | Process Phenotype Data |
pxg_plot | PxG plot |
qq_plot | QQ-plot implemented in ggplot2 |
query_vcf | Query VCF Data |
resolve_isotype | 'resolve_isotype' determines the isotype from a strain name. |
snpeff | Browse Variant Info |
snps | snps |
spike | Spike in an effect for GWAS mapping |
tajimas_d | Tajima's D |
variant_correlation | Process QTL Intervals |
vcf_to_matrix | VCF To Matrix |
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