selectTemplates: selectTemplates

In MichelleMengzhi/hmtp: Homology Modeling Templates Preparation

Description

Select template sequences for given target sequence from given sequence database.

Usage

selectTemplates(targetSequence, databaseSequences, crossReference)

Arguments

targetSequence	The filepath of target sequence.
databaseSequences	The filepath of sequence database.
crossReference	The filepath of database sequences in text file with only entry and cross reference information.

Value

return nothing but output:

• A Visualization of pairwise alignment of selected templates and target sequences in html.

• Corresponding online pdb files in local

• Corresponding alignment files in local

Examples

# Go to UniPort, download protein A3SNF5 sequence in fasta as the target
# sequence (targetExample.fasta); its IPR005814 family entry database
# in fasta and text that is reviewed and has 3D structure with pdb
# (databaseExample.fasta, databaseExample.txt).

selectTemplates("targetExample.fasta", "databaseExample.fasta",
                "databaseExample.txt")

MichelleMengzhi/hmtp documentation built on Dec. 12, 2019, 12:54 a.m.