Additional file 1: of ‘apparent’: a simple and flexible R package for accurate SNP-based parentage analysis in the absence of guiding information

An example input file for the ‘apparent’ package, featuring a population of 20 individuals, genotyped at ten SNP loci. Column one of the input file contains the ID’s of the individuals in the population. Column two contains a classification key which assigns each individual to one of five possible classes for analysis: Mo = potential mother; Fa = potential father; Pa = potential parent (either Fa or Ma); Off = potential offspring; and All = all possible classes (i.e. there is no previous information, and the individual will be tested as a potential Fa, Ma, and Off). The third and all subsequent columns contain genotype calls, with one SNP per column and the alleles separated by “/”. A missing genotype is represented as “−/−”. The tab-delimited input file has no column headers. (TXT 1 kb)