alignment3dVisualization: alignment3dVisualization
In MichelleMengzhi/hmtp: Homology Modeling Templates Preparation

Description Usage Arguments Value Examples

View source: R/alignment3dVisualization.R

Visualization of how similar two sequences are in 3D. Note that the input pdb file must be the pdb after alignment. The blue one should be the template and the red one should be the target. A recommend webpage is http://fatcat.burnham.org/fatcat-cgi/cgi/fatcat.pl?-func=pairwise Download the pdb file after submitting the alignemnt as the input as this function.

1	alignment3dVisualization(alignedPath, targetName, templateName)

`alignedPath`	The filepath of pdb after alignment.
`targetName`	A string for the pdb name for the first part of the pdb file after alignment.
`templateName`	A string for the pdb name for the second part of the pdb file after alignment.

return nothing but a window for visualization of two proteins in 3D

# http://fatcat.burnham.org/fatcat-cgi/cgi/fatcat.pl?-func=pairwise
# submit two files to the link and dowload the pdb file, call
# it align.pdb

alignment3dVisualization("./inst/extdata/alignedExample.pdb", "4GSA", "5TE2")