CMSTtests : CreateDesignMatrix: no visible global function definition
  for ‘model.matrix’
CMSTtests : CreateDesignMatrix: no visible global function definition
  for ‘as.formula’
CMSTtests : ParametricIUCMST: no visible global function definition for
  ‘pnorm’
CMSTtests : NonparametricIUCMST: no visible global function definition
  for ‘pbinom’
CMSTtests : GetLogLik: no visible global function definition for
  ‘dnorm’
CMSTtests: no visible global function definition for ‘cov’
CMSTtests: no visible global function definition for ‘cov2cor’
CitTests: no visible global function definition for ‘lm’
CitTests: no visible global function definition for ‘anova’
CitTests: no visible global function definition for ‘resid’
CitTests: no visible global function definition for ‘runif’
CitTests: no visible global function definition for ‘pf’
CitTests: no visible global function definition for ‘qnorm’
CitTests: no visible global function definition for ‘pnorm’
CitTests: no visible global function definition for ‘sd’
DropMissing: no visible global function definition for ‘na.omit’
FDRplot: no visible global function definition for ‘par’
FDRplot: no visible global function definition for ‘plot’
FDRplot: no visible global function definition for ‘abline’
FDRplot: no visible global function definition for ‘points’
GetCommonQtls : CreateCovMatrix: no visible global function definition
  for ‘formula’
GetCommonQtls : CreateCovMatrix: no visible global function definition
  for ‘model.matrix’
MyMultipleTestingSim: no visible global function definition for ‘runif’
MyMultipleTestingSim2: no visible global function definition for
  ‘runif’
SimCross1: no visible global function definition for ‘rnorm’
SimCross2: no visible global function definition for ‘rnorm’
SimCross3: no visible global function definition for ‘rnorm’
SimCross4: no visible global function definition for ‘rnorm’
SimCross5: no visible global function definition for ‘rnorm’
SimCross6: no visible global function definition for ‘rnorm’
SimCrossCausal: no visible global function definition for ‘rnorm’
SimCrossIndep: no visible global function definition for ‘rnorm’
add.rug: no visible global function definition for ‘par’
add.rug: no visible global function definition for ‘rug’
add.rug: no visible global function definition for ‘abline’
add.rug: no visible global function definition for ‘axis’
add.rug: no visible global function definition for ‘mtext’
add.rug: no visible global function definition for ‘title’
big.phase2: no visible binding for global variable ‘window’
get.chr.pos: no visible global function definition for ‘rnorm’
include.hotspots : update.pheno: no visible global function definition
  for ‘rnorm’
include.hotspots : update.pheno: no visible global function definition
  for ‘runif’
make.maxlod : tmpfn2: no visible global function definition for
  ‘median’
myapprox: no visible global function definition for ‘approx’
normal.trans: no visible global function definition for ‘qnorm’
p.adjust.np: no visible global function definition for ‘p.adjust’
parallel.error: no visible global function definition for ‘write.table’
parallel.message: no visible global function definition for
  ‘write.table’
plot.bic.aic: no visible global function definition for ‘par’
plot.bic.aic: no visible global function definition for ‘plot’
plot.bic.aic: no visible global function definition for ‘abline’
plot.bic.aic: no visible global function definition for ‘points’
plot.cit: no visible global function definition for ‘par’
plot.cit: no visible global function definition for ‘plot’
plot.cit: no visible global function definition for ‘abline’
plot.cit: no visible global function definition for ‘points’
plot.highlod: no visible global function definition for ‘plot’
plot.hotperm : tmp.plot: no visible global function definition for
  ‘plot’
plot.hotperm : tmp.plot: no visible global function definition for
  ‘mtext’
plot.hotperm : tmp.plot: no visible global function definition for
  ‘abline’
plot.hotperm : tmp.plot: no visible global function definition for
  ‘lines’
plot.hotperm : tmp.plot: no visible global function definition for
  ‘text’
plot.hotperm : tmp.plot: no visible global function definition for
  ‘par’
plot.hotperm: no visible global function definition for ‘par’
plot.hotperm: no visible global function definition for ‘plot’
plot.hotperm: no visible global function definition for ‘abline’
plot.hotperm: no visible global function definition for ‘mtext’
plot.hotperm: no visible global function definition for ‘lines’
plot.hotperm: no visible global function definition for ‘text’
plot.hotperm: no visible global function definition for ‘title’
plot.hotsize: no visible global function definition for ‘plot’
plot.hotsize: no visible global function definition for ‘abline’
plot.hotsize: no visible global function definition for ‘axis’
plot.hotsize: no visible global function definition for ‘mtext’
plot.non.par.cmst: no visible global function definition for ‘par’
plot.non.par.cmst: no visible global function definition for ‘plot’
plot.non.par.cmst: no visible global function definition for ‘abline’
plot.non.par.cmst: no visible global function definition for ‘points’
plot.par.cmst: no visible global function definition for ‘par’
plot.par.cmst: no visible global function definition for ‘plot’
plot.par.cmst: no visible global function definition for ‘abline’
plot.par.cmst: no visible global function definition for ‘points’
plot.par.cmst.joint: no visible global function definition for ‘par’
plot.par.cmst.joint: no visible global function definition for ‘plot’
plot.par.cmst.joint: no visible global function definition for ‘abline’
plot.par.cmst.joint: no visible global function definition for ‘points’
qtlhot.phase1: no visible global function definition for ‘write.table’
sexbatch.covar: no visible global function definition for ‘formula’
sexbatch.covar: no visible global function definition for
  ‘model.matrix’
sim.null.pheno.data: no visible global function definition for ‘rnorm’
sliding.bar.plot : create.rug: no visible global function definition
  for ‘median’
sliding.bar.plot: no visible global function definition for ‘par’
sliding.bar.plot: no visible global function definition for ‘plot’
sliding.bar.plot: no visible global function definition for ‘rug’
sliding.bar.plot: no visible global function definition for ‘axis’
sliding.bar.plot: no visible global function definition for ‘mtext’
sliding.bar.plot: no visible global function definition for ‘segments’
slidingbar.plot: no visible global function definition for ‘image’
slidingbar.plot: no visible global function definition for ‘mtext’
slidingbar.plot: no visible global function definition for ‘abline’
slidingbar.plot: no visible global function definition for ‘par’
slidingbar.plot: no visible global function definition for ‘axis’
Undefined global functions or variables:
  abline anova approx as.formula axis cov cov2cor dnorm formula image
  lines lm median model.matrix mtext na.omit p.adjust par pbinom pf
  plot pnorm points qnorm resid rnorm rug runif sd segments text title
  window write.table
Consider adding
  importFrom("graphics", "abline", "axis", "image", "lines", "mtext",
             "par", "plot", "points", "rug", "segments", "text", "title")
  importFrom("stats", "anova", "approx", "as.formula", "cov", "cov2cor",
             "dnorm", "formula", "lm", "median", "model.matrix",
             "na.omit", "p.adjust", "pbinom", "pf", "pnorm", "qnorm",
             "resid", "rnorm", "runif", "sd", "window")
  importFrom("utils", "write.table")
to your NAMESPACE file.