Create example files to test the package.
A logical value specfying whether log messages should be printed (default = TRUE).
This function downloads the following example files to the R temporary directory (requires internet connection):
For details about the format of these files, see
ghap.compress. The dataset was extracted from the reference phased data available at the IMPUTE2 (Howie et al., 2009) software website (https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#reference).
The genotypes derive from the International HapMap Project Phase 3 (The International HapMap 3 Consortium, 2010), and comprise 1,011 subjects (from 11 populations) and 20,000 SNPs (randomly sampled from chromosome 2) mapped to the NCBI build 36 (hg18) assembly. The source link is (https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#reference)
Yuri Tani Utsunomiya <firstname.lastname@example.org>
Marco Milanesi <email@example.com>
B. N. Howie, P. Donnelly, and J. Marchini. A flexible and accurate genotype imputation method for the next generation of genome-wide association studies. PLOS Genet. 2009. 5, e1000529.
The International HapMap 3 Consortium. Integrating common and rare genetic variation in diverse human populations. Nature. 2010. 467, 52-58.
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# # Copy the example data in the current working directory # exfiles <- ghap.makefile() # file.copy(from = exfiles, to = "./")
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