plot_aligned: A function for the visualization of an aligned chromatogram...
In ArshiaMahmoodi/DrawAlignR: Visualizes Aligned Ms2 Chromatograms

A function for the visualization of an aligned chromatogram to a reference chromatogram

plot_aligned(
  chrom,
  shift,
  precursor,
  Run_ID,
  Reference_ID,
  RT,
  Reference_RT,
  Left_width,
  Right_width,
  mz,
  sequence
)

`chrom`	rds chromatogram file which contains a list of peptides with their retention times and intensities.
`shift`	The specific retention time shift of the alignment, obtained upstream using DialignR
`RT`	The retention time of the peptide
`Reference_RT`	The retention time of the precursor in the reference run.
`Left_width`	Left width of the retention time
`Right_width`	Right width of the retention time
`mz`	The mass to charge value of the precursor
`sequence`	The sequence of the precursor
`peptide`	the precursor id of the specific peptide you would like to plot.
`Run_Id`	The run from which the peptide came from
`Reference_Id`	The reference run/precursor to which this peptide was aligned to.