Man pages for JimWhiting91/afvaper
AF-vapeR: Allele Frequency Vector Analysis of Parallel Evolutionary Responses
| calc_AF_vectors | Calculate Allele Frequency Change Vectors from a VCF |
| eigen_analyse_vectors | Eigen Analysis of Allele Frequency Change Vector Matrix |
| eigen_pvals | Calculate associated p-values for AF-vapeR eigenvalues |
| eigenval_plot | Plot Windowed Eigenvalues Along a Chromosome |
| find_null_cutoff | Find Null Cutoffs Based on Randomised Null Permuted Allele... |
| merge_eigen_res | Merge AF-vapeR Eigen Decomposition Results From Multiple... |
| signif_eigen_windows | Identify Windows with Parallel Evolution Evidence Based On... |
| sum_eigenvals | Sum Eigenvalues Across eigen_analyse_vector Results |
| summarise_window_parallelism | Summarise Parallel Evolution in Windows with Significant... |
| vcfR2AF | Calculate Allele Frequencies from a VCF |
| window2pos_df | Transform genome windows/co-ordinates to df of chr, start,... |
