ppi.alignPDB: PPI Align PDB
In egmg726/crisscrosslinker: An R package for protein interaction analysis
Description
Usage
Arguments
Value
Author(s)
Description
This functions aligns fasta file to PDB
Usage
1
ppi.alignPDB(fasta_file, alignIDs = NULL, uniprot2pdb = TRUE)
Arguments
fasta_file
Name of fasta file or loaded fasta file by seqinr::read.fasta().
alignIDs
A data.frame containing the columns "ProteinName", "UniProtID", and "PDB"
uniprot2pdb
If TRUE, will align to the UniProt sequence before aligning to the PDB. This parameter should be selected if the sequences used are not exactly UniProt (such as a slightly different N-terminal), but are relatively similar.
Value
A list containing vectors corresponding to the length of the FASTA file sequences. Containments alignments to UniProt and PDB with corresponding chain IDs.
Author(s)
Emma Gail
egmg726/crisscrosslinker documentation built on Jan. 23, 2021, 1:50 a.m.
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Description Usage Arguments Value Author(s)
Description
This functions aligns fasta file to PDB
Usage
1 | ppi.alignPDB(fasta_file, alignIDs = NULL, uniprot2pdb = TRUE)
|
Arguments
fasta_file |
Name of fasta file or loaded fasta file by seqinr::read.fasta(). |
alignIDs |
A data.frame containing the columns "ProteinName", "UniProtID", and "PDB" |
uniprot2pdb |
If TRUE, will align to the UniProt sequence before aligning to the PDB. This parameter should be selected if the sequences used are not exactly UniProt (such as a slightly different N-terminal), but are relatively similar. |
Value
A list containing vectors corresponding to the length of the FASTA file sequences. Containments alignments to UniProt and PDB with corresponding chain IDs.
Author(s)
Emma Gail
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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