AlignmentScoringOptions (BioFSharp)

AlignmentScoringOptions Type

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

Union case	Description
`DelBase int` Full Usage: `DelBase int` Parameters: Item : `int`	deletion extension penalty per base (in addition to scoreDelOpen) Item : `int`
`DelOpen int` Full Usage: `DelOpen int` Parameters: Item : `int`	deletion open penalty Item : `int`
`Gap int` Full Usage: `Gap int` Parameters: Item : `int`	splice junction penalty (independent on intron motif) Item : `int`
`GapATAC int` Full Usage: `GapATAC int` Parameters: Item : `int`	AT/AC and GT/AT junction penalty (in addition to scoreGap) Item : `int`
`GapGCAG int` Full Usage: `GapGCAG int` Parameters: Item : `int`	GC/AG and CT/GC junction penalty (in addition to scoreGap) Item : `int`
`GapNoncan int` Full Usage: `GapNoncan int` Parameters: Item : `int`	non-canonical junction penalty (in addition to scoreGap) Item : `int`
`GenomicLengthLog2scal int` Full Usage: `GenomicLengthLog2scal int` Parameters: Item : `int`	extra score logarithmically scaled with genomic length of the alignment: scoreGenomicLengthLog2scale*log2(genomicLength) Item : `int`
`InsBase int` Full Usage: `InsBase int` Parameters: Item : `int`	insertion extension penalty per base (in addition to scoreInsOpen) Item : `int`
`InsOpen int` Full Usage: `InsOpen int` Parameters: Item : `int`	insertion open penalty Item : `int`
`StitchSJshift int` Full Usage: `StitchSJshift int` Parameters: Item : `int`	maximum score reduction while searching for SJ boundaries inthe stitching step Item : `int`

Static member	Description
`AlignmentScoringOptions.makeCmd` Full Usage: `AlignmentScoringOptions.makeCmd` Returns: `AlignmentScoringOptions -> string list`	Returns: `AlignmentScoringOptions -> string list`