ProteinInferenceOptions_Percolator (BioFSharp.Mz) | BioFSharp.Mz

BioFSharp.Mz

ProteinInferenceOptions_Percolator Type

Namespace: BioFSharp.Mz
Assembly: BioFSharp.Mz.dll
Parent Module: Parameters
Base Type: obj
All Interfaces: IEquatable<ProteinInferenceOptions_Percolator> , IStructuralEquatable

Union cases

Union case	Description
`Fasta FileInfo` Full Usage: `Fasta FileInfo` Parameters: Item : `FileInfo`	Use the picked protein-level FDR to infer protein probabilities. Provide the fasta file as the argument to this flag, which will be used for protein grouping based on an in-silico digest. If no fasta file is available or protein grouping is not desired, set this flag to "auto" to skip protein grouping. Item : `FileInfo`
`Protease string` Full Usage: `Protease string` Parameters: Item : `string`	Type of enzyme "no_enzyme","elastase","pepsin","proteinasek","thermolysin","trypsinp","chymotrypsin","lys-n","lys-c", "arg-c","asp-n","glu-c","trypsin" default="trypsin" Item : `string`
`ProteinDecoyPattern string` Full Usage: `ProteinDecoyPattern string` Parameters: Item : `string`	Define the text pattern to identify decoy proteins in the database. Default = "random_". Item : `string`
`ReportProteinDuplicates` Full Usage: `ReportProteinDuplicates`	If multiple database proteins contain exactly the same set of peptides, then Percolator will randomly discard all but one of the proteins. If this option is set, then the IDs of these duplicated proteins will be reported as a comma-separated list. Not available for Fido.
`ReportProteinFragments` Full Usage: `ReportProteinFragments`	By default, if the peptides associated with protein A are a proper subset of the peptides associated with protein B, then protein A is eliminated and all the peptides are considered as evidence for protein B. Note that this filtering is done based on the complete set of peptides in the database, not based on the identified peptides in the search results. Alternatively, if this option is set and if all of the identified peptides associated with protein B are also associated with protein A, then Percolator will report a comma-separated list of protein IDs, where the full-length protein B is first in the list and the fragment protein A is listed second. Not available for Fido.

Instance members

Instance member	Description
`this.IsFasta` Full Usage: `this.IsFasta` Returns: `bool`	Returns: `bool`
`this.IsProtease` Full Usage: `this.IsProtease` Returns: `bool`	Returns: `bool`
`this.IsProteinDecoyPattern` Full Usage: `this.IsProteinDecoyPattern` Returns: `bool`	Returns: `bool`
`this.IsReportProteinDuplicates` Full Usage: `this.IsReportProteinDuplicates` Returns: `bool`	Returns: `bool`
`this.IsReportProteinFragments` Full Usage: `this.IsReportProteinFragments` Returns: `bool`	Returns: `bool`