Man pages for rmsharp/parentfindr
What the Package Does (One Line, Title Case)
| addSecondParents | Add second parent data to first parent data.frame object. |
| capitalizeFirstLetter | Captitalize first letter of each word in a character string |
| collectTrioScores | Collect all the scores for possible parents for an offspring. |
| computescores | Scores a potential parent to a kid and optionally a... |
| countMissingLoci | Counts the number of loci with missing data |
| createParentFindrReport | Create results report for parentfindr |
| excludeOffspring | Exclude offspring by ID. |
| getAnimalAlleleFileHeaders | Gets character vector of the approved file headers before... |
| getAnimalAlleles | Tests to see if the potential trios file has the appropriate... |
| getAnimalAllelesDfFromCsv | Extract animal allele data from the animal allele file. |
| getAnimalAllelesDfFromExcel | Extract animal allele data from the Excel formatted animal... |
| getFirstParents | Get first parent IDs |
| getFirstParentScores | Get first parent scores from scores object |
| getOffspringNoDam | Get offspring with no dams in trios object |
| getOffspringNoSire | Get offspring with no dams in trios object |
| getOffspringOverMoxMissing | Get offspring with greater than maximum missing loci |
| getParamDef | Get parameter definitions from tokens found in configuration... |
| getParentfindrConfig | Get parentfindr configuration |
| getParentfindrConfigFileName | getParentfindrConfigFileName returns the configuration file... |
| getScores | Get all of the 'missing', 'invalid', and 'descrepant' loci... |
| getSecondParents | Get second parent IDs |
| getSecondParentScores | Get second parent score from scores object |
| getSublist | Get the names in a named sublist nested at any depth within... |
| getTokenList | Gets tokens from character vector of lines |
| getTrios | Detect file type of trios file and routes its parsing. |
| getTriosDfFromCsv | Creates a dataframe with a set of potential parents with one... |
| getTriosDfFromExcel | Creates a dataframe with a set of potential parents for in on... |
| getTriosFileHeaders | Gets character vector of the approved file headers for a... |
| isValidAnimalAlleleHeader | Tests to see if the potential trios file has the appropriate... |
| isValidTrioHeader | Tests to see if the potential trios file has the appropriate... |
| makeFirstParentDf | Make first parent data.frame object for dams or sires portion... |
| makeScoresDf | Make data.frame object from scores object |
| makeTriosRow | Translates raw rows of an animal trios file to a named list... |
| parseAlleles | Translates tokens of an animal allele pairs to character... |
| removeDamsBelowMinNumber | Remove rows from scoresDf with dams having below minimum... |
| removeDamsOverMaxDiscrepant | Remove rows from scoresDf with dams having greater than... |
| removeDamsOverMaxMissing | Remove dams with greater than maximum missing loci |
| removeSiresBelowMinNumber | Remove rows from scoresDf with sires having below minimum... |
| removeSiresOverMoxDiscrepant | Remove rows from scoresDf with sires having greater than... |
| removeSiresOverMoxMissing | Remove sires with greater than maximum missing loci |
| snpAnimalAlleles | snpAnimalAlleles is a loadable version of the example snp... |
| snpTrios | snpTrios is a loadable version of the example snp trios data... |
| sortScores | Sorts the 'scores' object |
| stripComments | Strip off comments |
