Man pages for rehh
Searching for Footprints of Selection using 'Extended Haplotype Homozygosity' Based Tests
| allelefurcation-class | An S4 class containing furcation trees for one allele of a... |
| as.newick | Convert a furcation tree into Newick format |
| calc_candidate_regions | Determine candidate regions of selection |
| calc_ehh | EHH and iHH computation for a given focal marker |
| calc_ehhs | EHHS and iES computation for a given focal marker |
| calc_furcation | calculate furcation trees around a focal marker |
| calc_haplen | Calculate length of longest shared haplotypes around a focal... |
| calc_pairwise_haplen | Calculate pairwise shared haplotype length between all... |
| calc_region_stats | Calculate score statistics for given regions |
| calc_sfs_tests | Calculate site frequency spectrum test statistics |
| data2haplohh | Convert data from input file to an object of class haplohh |
| distribplot | Plot distribution of standardized iHS, Rsb or XP-EHH values |
| extract_regions | Extract regions from a scan |
| freqbinplot | Plot of unstandardized iHS within frequency bins |
| ftree-class | An S4 class to represent a furcation tree on one side of one... |
| furcation-class | An S4 class representing the complete furcation pattern... |
| haplen-class | class for haplotype length |
| haplohh2sweepfinder | Translate object of 'haplohh-class' into SweepFinder format |
| haplohh_cgu_bta12 | Example of an 'haplohh' object |
| haplohh-class | Class "haplohh" |
| ies2xpehh | Compute XP-EHH |
| ihh2ihs | Compute iHS |
| ines2rsb | Compute Rsb |
| make.example.files | Copy example input files into current working directory |
| manhattanplot | Manhattan plot of iHS, XP-EHH or Rsb over a genome. |
| plot.ehh | Plot EHH around a focal marker |
| plot.ehhs | Plot EHHS around a focal marker |
| plot.furcation | Plots furcation trees around a focal marker |
| plot.haplen | Plot the length of extended haplotypes around a focal marker |
| plot.haplohh | Plot the variants of a haplohh object |
| rehh-package | rehh: Searching for Footprints of Selection using 'Extended... |
| remove.example.files | Remove example files from current working directory. |
| scan_hh | Compute iHH, iES and inES over a whole chromosome |
| scan_hh_full | Compute iHH, iES and inES over a whole chromosome without... |
| subset.haplohh | Subsets object of 'haplohh-class' |
| update_haplohh | Update object of class haplohh |
