Description Usage Arguments Value Author(s) See Also Examples
This function extracts the data concerning missing amino acids in PDB protein structure from the PDB file
1 | get_remarks465_pdb(pdb_path, chain_identifier)
|
pdb_path |
A string specifying the path tp the PDB file |
chain_identifier |
A character specifying the chain to be considered |
aa_numbers |
A numeric vector of indices of missing amino acids |
chain |
A character specifying the chain which was considered in remark 465 data extraction |
Michal Stolarczyk & Alicja Pluciennik
1 2 3 4 5 6 | require(Rpdb)
chain_identifier = "A"
pdb_path = system.file("extdata", "4jnc.pdb", package = "BALCONY")
print(pdb_path)
#pdb_file_path = "path_to_file"
remark465_data = get_remarks465_pdb(pdb_path,chain_identifier)
|
Loading required package: seqinr
Loading required package: Rpdb
Loading required package: rgl
Attaching package: 'Rpdb'
The following objects are masked from 'package:base':
norm, replicate, unsplit
Loading required package: scales
Attaching package: 'BALCONY'
The following object is masked from 'package:seqinr':
consensus
Warning messages:
1: In rgl.init(initValue, onlyNULL) : RGL: unable to open X11 display
2: 'rgl_init' failed, running with rgl.useNULL = TRUE
3: .onUnload failed in unloadNamespace() for 'rgl', details:
call: fun(...)
error: object 'rgl_quit' not found
[1] "/usr/local/lib/R/site-library/BALCONY/extdata/4jnc.pdb"
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