DivergenceDROSOPHILA: no visible global function definition for ‘data’
DivergenceHOMO: no visible global function definition for ‘data’
DivergenceMUS: no visible global function definition for ‘data’
DivergenceRATTUS: no visible global function definition for ‘data’
EntropyDROSOPHILA: no visible global function definition for ‘data’
EntropyHOMO: no visible global function definition for ‘data’
EntropyMUS: no visible global function definition for ‘data’
EntropyRATTUS: no visible global function definition for ‘data’
JacksonParameters: no visible global function definition for ‘prcomp’
MEET: no visible global function definition for ‘write.table’
MEET: no visible global function definition for ‘read.table’
MEET: no visible global function definition for ‘data’
PCanalysis: no visible global function definition for ‘residuals’
PredictPCA: no visible global function definition for ‘residuals’
QresidualsDROSOPHILA: no visible global function definition for ‘data’
QresidualsHOMO: no visible global function definition for ‘data’
QresidualsMUS: no visible global function definition for ‘data’
QresidualsRATTUS: no visible global function definition for ‘data’
QtoJackson: no visible global function definition for ‘pnorm’
Read.aligned: no visible global function definition for ‘read.table’
chooseModel : <anonymous>: no visible global function definition for
  ‘sd’
pvalue: no visible global function definition for ‘sd’
pvalue: no visible global function definition for ‘extendrange’
writeMEME: no visible global function definition for ‘write.table’
writeResultsHTML: no visible global function definition for ‘data’
writeResultsHTML: no visible binding for global variable
  ‘RattusEntropy’
writeResultsHTML: no visible binding for global variable
  ‘RattusDivergence’
writeResultsHTML: no visible binding for global variable
  ‘RattusQresiduals’
writeResultsHTML: no visible binding for global variable ‘MusEntropy’
writeResultsHTML: no visible binding for global variable
  ‘MusDivergence’
writeResultsHTML: no visible binding for global variable
  ‘MusQresiduals’
writeResultsHTML: no visible binding for global variable
  ‘DrosophilaEntropy’
writeResultsHTML: no visible binding for global variable
  ‘DrosophilaDivergence’
writeResultsHTML: no visible binding for global variable
  ‘DrosophilaQresiduals’
writeResultsHTML: no visible binding for global variable ‘HomoEntropy’
writeResultsHTML: no visible binding for global variable
  ‘HomoDivergence’
writeResultsHTML: no visible binding for global variable
  ‘HomoQresiduals’
writeResultsHTML: no visible global function definition for ‘png’
writeResultsHTML: no visible global function definition for ‘dev.off’
Undefined global functions or variables:
  DrosophilaDivergence DrosophilaEntropy DrosophilaQresiduals
  HomoDivergence HomoEntropy HomoQresiduals MusDivergence MusEntropy
  MusQresiduals RattusDivergence RattusEntropy RattusQresiduals data
  dev.off extendrange png pnorm prcomp read.table residuals sd
  write.table
Consider adding
  importFrom("grDevices", "dev.off", "extendrange", "png")
  importFrom("stats", "pnorm", "prcomp", "residuals", "sd")
  importFrom("utils", "data", "read.table", "write.table")
to your NAMESPACE file.