Package: plinkQC
Type: Package
Title: Genotype Quality Control with 'PLINK'
Version: 0.3.2
Authors@R: 
    person("Hannah", "Meyer", email = "hannah.v.meyer@gmail.com",
    role = c("aut", "cre"), comment = c(ORCID = "0000-0003-4564-0899"))
URL: https://meyer-lab-cshl.github.io/plinkQC
BugReports: https://github.com/meyer-lab-cshl/plinkQC/issues
Maintainer: Hannah Meyer <hannah.v.meyer@gmail.com>
Description: Genotyping arrays enable the direct measurement of an individuals
    genotype at thousands of markers. 'plinkQC' facilitates genotype quality
    control for genetic association studies as described by Anderson and
    colleagues (2010) <doi:10.1038/nprot.2010.116>. It makes 'PLINK' basic
    statistics (e.g. missing genotyping rates per individual, allele frequencies
    per genetic marker) and relationship functions accessible from 'R' and
    generates a per-individual and per-marker quality control report.
    Individuals and markers that fail the quality control can subsequently be
    removed to generate a new, clean dataset. Removal of individuals based on
    relationship status is optimised to retain as many individuals as possible
    in the study.
Depends: R (>= 3.6.0)
Imports: methods, optparse, data.table (>= 1.11.0), R.utils, ggplot2,
        ggforce, ggrepel, cowplot, UpSetR, dplyr, igraph (>= 1.2.4),
        sys
Suggests: testthat, knitr, rmarkdown
License: MIT + file LICENSE
SystemRequirements: plink (1.9)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-07-07 13:39:06 UTC; hannah
Author: Hannah Meyer [aut, cre] (<https://orcid.org/0000-0003-4564-0899>)
Repository: CRAN
Date/Publication: 2020-07-07 14:00:02 UTC
Built: R 4.1.0; ; 2020-08-03 13:57:56 UTC; windows
