getBSP: no visible global function definition for 'read.csv'
io2box : <anonymous>: no visible global function definition for
  'quantile'
io2box : <anonymous>: no visible global function definition for
  'median'
ioAspic : <anonymous>: no visible global function definition for
  'quantile'
ioAspic : <anonymous>: no visible global function definition for
  'median'
ioBsp : <anonymous>: no visible global function definition for
  'quantile'
ioBsp : <anonymous>: no visible global function definition for 'median'
ioMFCL : <anonymous>: no visible global function definition for
  'quantile'
ioMFCL : <anonymous>: no visible global function definition for
  'median'
ioSS: no visible global function definition for 'read.csv'
ioSS : <anonymous>: no visible global function definition for
  'quantile'
ioSS : <anonymous>: no visible global function definition for 'median'
ioSS3: no visible global function definition for 'read.csv'
ioSS3 : <anonymous>: no visible global function definition for
  'quantile'
ioSS3 : <anonymous>: no visible global function definition for 'median'
kobeInterp: no visible global function definition for
  'colorRampPalette'
kobePhaseMar: no visible global function definition for
  'colorRampPalette'
kobePhaseMar: no visible global function definition for 'grey'
kobePhaseMar : <anonymous>: no visible global function definition for
  'median'
kobePhaseMar2: no visible global function definition for
  'colorRampPalette'
kobePhaseMar2: no visible global function definition for 'grey'
kobePhaseMar2 : <anonymous>: no visible global function definition for
  'median'
kobePhaseMar3: no visible global function definition for
  'colorRampPalette'
kobePhaseMar3: no visible global function definition for 'grey'
kobePhaseMar3 : <anonymous>: no visible global function definition for
  'median'
kobeTrksFn: no visible binding for global variable 'quantile'
readKobe2box: no visible global function definition for 'read.table'
readSam: no visible global function definition for 'read.table'
theme_ms: possible error in theme(axis.text = element_text(size =
  rel(0.8)), axis.ticks = element_line(colour = "black"), legend.key =
  element_rect(colour = "grey80"), panel.background = element_rect(fill
  = "white", colour = NA), panel.border = element_rect(fill = NA,
  colour = "grey50"), panel.grid.major = element_line(colour =
  "grey90", size = 0.2), panel.grid.minor = element_line(colour =
  "grey98", size = 0.5), strip.background = element_rect(fill =
  "grey80", colour = "grey50"), strip.background = element_rect(fill =
  "grey80", : formal argument "strip.background" matched by multiple
  actual arguments
theme_ms: possible error in colour = "grey50")): formal argument
  "strip.background" matched by multiple actual arguments
theme_ms: no visible global function definition for 'modifyList'
kobe2sm,data.frame: no visible global function definition for
  'colorRampPalette'
kobe2sm,data.frame: no visible global function definition for 'par'
kobe2sm,data.frame: no visible global function definition for
  'kobe2smFn'
kobe2sm,data.frame: no visible global function definition for 'mtext'
kobe,data.frame-missing : <anonymous>: no visible global function
  definition for 'kobeFn'
Undefined global functions or variables:
  colorRampPalette grey kobe2smFn kobeFn median modifyList mtext par
  quantile read.csv read.table
Consider adding
  importFrom("grDevices", "colorRampPalette", "grey")
  importFrom("graphics", "mtext", "par")
  importFrom("stats", "median", "quantile")
  importFrom("utils", "modifyList", "read.csv", "read.table")
to your NAMESPACE file.