| autoStopCluster | Sub-function to auto-stop the clusters created for parallel... |
| find_genes_qtls_around_markers | Search genes and QTLs around candidate regions |
| find_markers_genes | Function to annotate markers and the respective p-values... |
| gene_pval | Estimate a gene-level p-value using Weighted Z-score approach... |
| gffQTLs | A gff example for QTL annotation |
| Global | Global variables |
| gtfGenes | A gtf example for gene annotation |
| import_gff_gtf | Import .gtf and .gff files to be used during gene and QTL... |
| inferCut | Compute the eigenvalues for the linkage disequilibrium (LD)... |
| meta_LD | unction to perform Meta-Analysis with LD Correlation... |
| NetCen | Compute the centrality metrics for the nodes composing the... |
| NetVis | Create a dynamic network representing the relationship... |
| Nmarkers_SimpleM | Estimate the number of effective markers in a chromosome... |
| Nseg_chr | Estimate the number of independent segments in a chromosome... |
| overlapping_among_groups | Overlapping between grouping factors |
| PCA_Meff | Compute Meff statistic based on PCA to determine the number... |
| PleioChiTest | Compute a multi-trait test statistic for pleiotropic effects... |
| plot_overlapping | Plot overlapping between data and grouping factors |
| plot_qtl_info | Plot QTLs information from the find_genes_qtls_around_markers... |
| qtl_enrich | Performs a QTL enrichment analysis based on a hypergeometric... |
| QTLenrich_plot | Plot enrichment results for QTL enrichment analysis |
| QTLmarkers | Candidate markers identified by GWAS associated with... |
| QTLwindows | Candidate windows identified by GWAS associated with... |
| relationship_plot | Plot relationship between data and grouping factors |
| splitQTL_comment | Sub-function to split comment column from QTL output |
| sub_genes_markers | Sub-function to search genes around candidate markers |
| sub_genes_windows | Sub-function to search genes around candidate markers |
| sub_qtlEnrich_chrom | Performs a QTL enrichment analysis based in a Bootstrap... |
| sub_qtlEnrich_geno | Performs a QTL enrichment analysis based in a Bootstrap... |
| sub_qtl_markers | Sub-function to search QTLs around candidate markers |
| sub_qtl_windows | Sub-function to search QTLs around candidate markers |
| WZ_ld | Function to perform Weighted Z-score Approach with LD... |
