Plot error in trajectory analysis

I am new to R. I would appreciate your patience.

I am mainly interested in PCA, NMA and network analysis.

I am also encountering plotting error.

Tutorial I am trying is: http://thegrantlab.org/bio3d/vignettes/Bio3D_md.pdf

Similar plotting error occurred more than once in different command.

I am listing error below.

Tutorial Error:

> rd <-rmsd(xyz[1, ca.inds$xyz], xyz[,ca.inds$xyz])
> plot(rd, typ="1", ylab="RMSD", xlab="Frame No.")
Error in plot.xy(xy, type, ...) : invalid plot type '1'
> 

 points(lowess(rd), typ="1", col="red", lty=2, lwd=2)
Error in plot.xy(xy.coords(x, y), type = type, ...) : 
  plot.new has not been called yet
> plot(rd, typ="1", ylab="RMSD", xlab="Frame No.")
Error in plot.xy(xy, type, ...) : invalid plot type '1'
> points(lowess(rd), typ="1", col="red", lty=2, lwd=2)
Error in plot.xy(xy.coords(x, y), type = type, ...) : 
  invalid plot type '1'

> plot.bio3d(pc$au[,1], ylab="PC1 (A)", xlab="Residue Position", typ="1")
Error in plot.xy(xy.coords(x, y), type = type, ...) : 
  invalid plot type '1'
> plot.bio3d(pc$au[,2], typ="1", col="blue")
Error in plot.xy(xy.coords(x, y), type = type, ...) : 
  invalid plot type '1'


> pymol.dccm(cij, pdb, type="launch")
Error: could not find function "pymol.dccm"

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