AttributeOptions (BioFSharp) | BioFSharp

AttributeOptions Type

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

desired SAM attributes, in the order desired for the output SAM

Union cases

Union case	Description
`All` Full Usage: `All`	NH HI AS nM NM MD jM jI MC ch
`Custom string list` Full Usage: `Custom string list` Parameters: Item : `string list`	NH HI AS nM NM MD jM jI XS MC ch ... any combination in any order Item : `string list`
`NoAttributes` Full Usage: `NoAttributes`	no attributes
`RB` Full Usage: `RB`	alignment block read/genomic coordinates
`SM` Full Usage: `SM`	assessment of CB and UMI
`SQ` Full Usage: `SQ`	quality of the entire barcode
`SS` Full Usage: `SS`	sequence of the entire barcode (CB,UMI,adapter...)
`SoloCustom string list` Full Usage: `SoloCustom string list` Parameters: Item : `string list`	CR CY UR UY ... sequences and quality scores of cell barcodes and UMIs for the solo* demultiplexing CB UB ... error-corrected cell barcodes and UMIs for solo* demultiplexing. Requires --outSAMtype BAM SortedByCoordinate. Item : `string list`
`Standard` Full Usage: `Standard`	NH HI AS nM
`VA` Full Usage: `VA`	variant allele
`VG` Full Usage: `VG`	genomic coordiante of the variant overlapped by the read
`VR` Full Usage: `VR`	read coordinate of the variant
`VW` Full Usage: `VW`	0/1 - alignment does not pass / passes WASP filtering. Requires --waspOutputMode SAMtag

Static members

Static member	Description
`AttributeOptions.make` Full Usage: `AttributeOptions.make` Returns: `AttributeOptions -> string`	Returns: `AttributeOptions -> string`