approx.bf.p: no visible global function definition for 'qnorm'
coeff.plot: no visible global function definition for 'polygon'
coeff.plot: no visible global function definition for 'abline'
coeff.plot: no visible global function definition for 'arrows'
coeff.plot: no visible global function definition for 'points'
coeff.plot: no visible global function definition for 'segments'
coloc.abf.snpStats: no visible global function definition for
  'single.snp.tests'
coloc.abf.snpStats: no visible global function definition for
  'col.summary'
coloc.bma: no visible global function definition for 'as.formula'
coloc.bma: no visible global function definition for 'glm'
coloc.bma: no visible global function definition for 'coefficients'
coloc.bma : <anonymous>: no visible global function definition for
  'combn'
coloc.bma: no visible global function definition for 'vcov'
coloc.combine: no visible global function definition for 'var'
coloc.combine: no visible global function definition for 'pf'
coloc.combine: no visible global function definition for 'pchisq'
coloc.test: no visible global function definition for 'coefficients'
coloc.test: no visible global function definition for 'vcov'
coloc.test.summary : findmin: no visible global function definition for
  'optimize'
coloc.test.summary: no visible global function definition for
  'integrate'
coloc.test.summary : pv: no visible global function definition for
  'pchisq'
coloc.test.summary : bf.calc: no visible global function definition for
  'integrate'
credible.interval: no visible global function definition for 'optimize'
credible.interval: no visible global function definition for
  'integrate'
extra.plot: no visible global function definition for 'axis'
extra.plot: no visible global function definition for 'box'
extra.plot: no visible global function definition for 'abline'
fillin: no visible global function definition for 'col.summary'
fillin: no visible global function definition for 'snp.imputation'
fillin: no visible global function definition for 'impute.snps'
pcs.model: no visible global function definition for 'as.formula'
pcs.model: no visible global function definition for 'glm'
pcs.model: no visible global function definition for 'coefficients'
pcs.prepare: no visible global function definition for 'prcomp'
prepare.df: no visible global function definition for 'cor'
sdY.est: no visible global function definition for 'lm'
sdY.est: no visible global function definition for 'coef'
p.value,coloc: no visible global function definition for 'pchisq'
plot,colocPCs-missing: no visible binding for global variable 'object'
plot,colocPCs-missing: no visible global function definition for
  'abline'
Undefined global functions or variables:
  abline arrows as.formula axis box coef coefficients col.summary combn
  cor glm impute.snps integrate lm object optimize pchisq pf points
  polygon prcomp qnorm segments single.snp.tests snp.imputation var
  vcov
Consider adding
  importFrom("graphics", "abline", "arrows", "axis", "box", "points",
             "polygon", "segments")
  importFrom("stats", "as.formula", "coef", "coefficients", "cor", "glm",
             "integrate", "lm", "optimize", "pchisq", "pf", "prcomp",
             "qnorm", "var", "vcov")
  importFrom("utils", "combn")
to your NAMESPACE file.