API for PBR/PediHaplotyper
PediHaplotyper assigns haploblock alleles based on phased marker data in pedigrees
| Global functions | |
|---|---|
| PediHaplotyper | Man page |
| PediHaplotyper-package | Man page |
| addNArow | Source code |
| allelecolors | Source code |
| allelecolors.statistics | Source code |
| allelecolors.statistics.mrkrows | Source code |
| calc.matchmatrix | Source code |
| calc.oldVSnew | Source code |
| calc.recombs | Source code |
| calcMinHaplofreq | Source code |
| checkHaploblocks | Source code |
| checkMapOrder | Source code |
| checkNadd1 | Source code |
| checkNadd2 | Source code |
| checkmapfiletype | Source code |
| combineHaplotypes | Source code |
| conv.hballelenames | Source code |
| fq_haplotyping_session | Man page Source code |
| get.HSfam.haplotypes | Source code |
| get.all.HSfamilies | Source code |
| get.chromnames | Source code |
| getHSParentalHaplotypeFreqs | Source code |
| getHaploblockmap | Source code |
| getMarkerarray | Source code |
| getUsedMarkermap | Source code |
| get_hballeleID | Source code |
| get_initial_haplotypes | Source code |
| gethaplotypenr | Source code |
| getnewhapnr | Source code |
| groupHaplotypes | Source code |
| groupNwrite.all.haploblockalleles | Source code |
| haplo2mrkallnrarr | Source code |
| haplotyping_session | Man page Source code |
| include_oldhballeles | Source code |
| is.nodata | Source code |
| isPedigreeSorted | Source code |
| match.haplo | Source code |
| mhaplotypes2generic | Source code |
| mrkallnrarr2mrkallnamearr | Source code |
| mrkdat | Man page |
| processAllFocalpoints | Source code |
| processFocalpointHS | Source code |
| processHSfam | Source code |
| read.table.origheaders | Source code |
| read_FQparfile | Source code |
| read_map_from_extended_FQmap | Source code |
| read_map_from_mhaplotypes | Source code |
| read_map_from_table | Source code |
| read_oldhballeles | Source code |
| read_pedigree | Source code |
| read_phasedgenofile | Source code |
| sortPedigree | Source code |
| testSourceTarget | Source code |
| transpose | Man page Source code |
| transpose.dfr | Source code |
| transpose.file | Source code |
| twocols2tworows | Man page Source code |
| twocols2tworows.dfr | Source code |
| twocols2tworows.file | Source code |
| tworows2twocols | Man page Source code |
| tworows2twocols.dfr | Source code |
| tworows2twocols.file | Source code |
| write.all.haploblockalleles | Source code |
| write.grouped.haplotypes | Source code |
| writeDatafiles | Source code |
| writeHSfamHaplotypes | Source code |
| writeHSfamHaplotypes.faminfo | Source code |
| writeHSfamHaplotypes.hapinfo | Source code |
| writePedimapFile | Source code |
