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BlastN Module

Namespace: BioFSharp.CLIArgs
Assembly: BioFSharp.dll
Parent Module: Blast

DSL for blastn programs The blastn application searches a nucleotide query against nucleotide subject sequences or a nucleotide database. Four different tasks are supported: 1.) “megablast”, for very similar sequences (e.g, sequencing errors) 2.) “dc-megablast”, typically used for inter-species comparisons 3.) “blastn”, the traditional program used for inter-species comparisons 4.) “blastn-short”, optimized for sequences less than 30 nucleotides.

Types

Type Description

BlastNParameters 

use this type to specify specific and generic command line parameters for the blastn task like this:

let myParams = [

     BlastNParameters.CommonOptions [...]

     BlastNParameters.SpecificOptions [...]
]

BlastNParams

DSL fo blastn command line options blastn is the traditional program used for inter-species comparisons

BlastNShortParameters 

use this type to specify specific and generic command line parameters for the blastn-short task like this:

let myParams = [

     BlastNShortParameters.CommonOptions [...]

     BlastNShortParameters.SpecificOptions [...]
]

BlastNShortParams

DSL fo the blastn 'blastn-short' task command line options blastn-short is optimized for sequences less than 30 nucleotides.

DCMegablastParameters 

use this type to specify specific and generic command line parameters for the blastn dc-megablast task like this:

let myParams = [

     DCMegablastParameters.CommonOptions [...]

     DCMegablastParameters.SpecificOptions [...]
]

DCMegablastParams

DSL fo the blastn 'dc-megablast' task command line options dc-megablast is typically used for inter-species comparison

MegablastParameters 

use this type to specify specific and generic command line parameters for the blastn megablast task like this:

let myParams = [

     MegablastParameters.CommonOptions [...]

     MegablastParameters.SpecificOptions [...]
]

MegablastParams

DSL fo the blastn 'megablast' task command line options megablast is usually used for very similar sequences (e.g, sequencing errors)

Type something to start searching.