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MatchBetweenRunsOptions Type

Namespace: BioFSharp.BioContainers
Assembly: BioFSharp.BioContainers.dll
Parent Module: MoFF
Base Type: obj
All Interfaces: IEquatable<MatchBetweenRunsOptions> , IStructuralEquatable , IComparable<MatchBetweenRunsOptions> , IComparable , IStructuralComparable

Those options run the MBR module, which takes a list of features of interest for a given run, and then matches the corresponding features in other runs. The output will be stored in a subfolder ('mbr_output') inside the specified input folder. The MBR module will consider all the .txt files present in the specified input folder as replicates (to select specific files or different extension, please refer to the example below). The files in sample_folder/mbr_output will be identical to the input files, but they will have an additional field ('matched') that specifies which peptides have match (1) or not (0). The MBR algorithm also produces a log file in the provided input directory.

Union cases

Union case Description

FileExtensionsInputFile string

Full Usage: FileExtensionsInputFile string

Parameters:
    Item : string

--ext file extention of the input file. Default .txt)

Item : string

FileNameMBRLogFile string

Full Usage: FileNameMBRLogFile string

Parameters:
    Item : string

--log_label filename for the mbr log file. Default moFF_mbr

Item : string

FilterInputFiles string

Full Usage: FilterInputFiles string

Parameters:
    Item : string

--sample reg exp to filter the input file names (only with --loc_in input option-

Item : string

OutlierFilter bool

Full Usage: OutlierFilter bool

Parameters:
    Item : bool

--out_flag if set, outliers for rt time allignment are filtered. Default value: True

Item : bool

WeightedRTModelCombination bool

Full Usage: WeightedRTModelCombination bool

Parameters:
    Item : bool

--w_comb if set, RT model combination is weighted using traing model errors: Default value: False

Item : bool

WidthForOutlierFiltering int

Full Usage: WidthForOutlierFiltering int

Parameters:
    Item : int

--w_filt width value for outlier filtering. Default 3

Item : int

Static members

Static member Description

MatchBetweenRunsOptions.make

Full Usage: MatchBetweenRunsOptions.make

Returns: MatchBetweenRunsOptions -> string list
Returns: MatchBetweenRunsOptions -> string list

MatchBetweenRunsOptions.makeWith m

Full Usage: MatchBetweenRunsOptions.makeWith m

Parameters:
Returns: MatchBetweenRunsOptions -> string list
m : MountInfo
Returns: MatchBetweenRunsOptions -> string list

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