C# Class PrimerDesigner.RealPrimerBlastRun

Mostra file Open project: igemsoftware/BU_Wellesley_Software_2011 Class Usage Examples

Public Methods

Method Description
BlastArgs ( String genomes ) : String[]

Specifies arguments for BLAST results for all five TB genomes. Format ex: blast_results_CDC1551.xml
MakeBlastDB ( String genomes ) : String[]

Specifies argements for the makeblastbd command.
RealPrimerBlastRun ( String primerSequence, String genomes ) : System
Run ( ) : void

Starts a new Command process.
WriteSequenceFasta ( String sequence, String filename, String description ) : void
WriteSequenceText ( String sequence ) : void

Writes the inputted sequence to a text file. We will write to the GnomesFolder in the bin folder of the executable. Used for Primer Sequence

Method Details

BlastArgs() public method

Specifies arguments for BLAST results for all five TB genomes. Format ex: blast_results_CDC1551.xml
public BlastArgs ( String genomes ) : String[]
genomes String String array of genomes being made into databases
return String[]

MakeBlastDB() public method

Specifies argements for the makeblastbd command.
public MakeBlastDB ( String genomes ) : String[]
genomes String String array of genomes being made into databases
return String[]

RealPrimerBlastRun() public method

public RealPrimerBlastRun ( String primerSequence, String genomes ) : System
primerSequence String
genomes String
return System

Run() public method

Starts a new Command process.
public Run ( ) : void
return void

WriteSequenceFasta() public method

public WriteSequenceFasta ( String sequence, String filename, String description ) : void
sequence String
filename String
description String
return void

WriteSequenceText() public method

Writes the inputted sequence to a text file. We will write to the GnomesFolder in the bin folder of the executable. Used for Primer Sequence
public WriteSequenceText ( String sequence ) : void
sequence String String of the DNA sequence being written to file
return void