Man pages for delomast/EFGLmh
Functions For Working With Microhaps for EFGL
| aRich | calculate allelic richness of loci |
| calcAF | calculate allele frequencies within populations Combinations... |
| calcHet | calculate expected and observed heterozygosity within... |
| cleanGrandma | convenience function to remove loci with all fails or no... |
| combineEFGLdata | combine multiple EFGL objects into one |
| construct_EFGLdata | some basic checks on EFGLdata objects |
| createF1Hybrids | Create F1 hybrids from two populations |
| dumpTable | wrapper for write table with commonly used options - carried... |
| exampleData | An example input dataset used in the vignette |
| exportCKMRsimAF | return a CKMRsim allele frequency input tibble. |
| exportCKMRsimLG | Return a long genotype tibble for input to CKMRsim for... |
| exportColony | write a Colony input file. |
| exportGenAlEx | write a GenAlEx input file |
| exportGenePop | write a genepop input file |
| exportGrandma | export a gRandma baseline or mixture |
| exportHierFstat | export a hierfstat input dataframe |
| exportPlink | export a Plink PED file and optionally a (not very useful... |
| exportProgenyStyle | export a "Progeny-style" export file for later reading into... |
| exportRubias_baseline | export a rubias baseline |
| exportRubias_mixture | export a rubias mixture |
| exportSNPPIT | write a SNPPIT input file. Will warn about skipping loci with... |
| exportStructure | write a Structure input file. |
| genoSuccess | calculate genotyping success of individuals (uses only allele... |
| getInds | get a vector of individuals present |
| getLoci | get a vector of loci names present |
| getMeta | get a vector of metadata column names present |
| getPops | get a vector of populations (pedigrees) present |
| lociSuccess | calculate genotyping success of loci (uses only allele 1 for... |
| moveInds | combine individuals into one population AND REMOVE the... |
| movePops | combine populations into one AND REMOVE the old populations |
| mtype2wide | A function for turning the genotype output of mtype2... |
| numInds | get the number of individuals present in each pop |
| print.EFGLdata | print method for EFGLdata |
| readInData | read in data from a Progeny-style output file or... |
| removeInds | remove individuals from an EFGLdata object |
| removeLoci | remove loci from an EFGLdata object |
| removePops | remove pops from an EFGLdata object |
| whichLower | Identify which individual out of duplicate pairs has the... |
