HMMalignParams (BioFSharp)

HMMalignParams Type

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

Union case	Description
`Alphabet AlphabetType list` Full Usage: `Alphabet AlphabetType list` Parameters: Item : `AlphabetType list`	assert alphabet to both input hmm and seqfile Item : `AlphabetType list`
`InputHMMFile string` Full Usage: `InputHMMFile string` Parameters: Item : `string`	HMM input file Item : `string`
`InputSequenceFile string` Full Usage: `InputSequenceFile string` Parameters: Item : `string`	Input sequence file to align. Sequence input formats include: FASTA, EMBL, GenBank, UniProt Item : `string`
`MapAlignmentToFile string` Full Usage: `MapAlignmentToFile string` Parameters: Item : `string`	include alignment in file (same ali that HMM came from) Item : `string`
`OutFormat string` Full Usage: `OutFormat string` Parameters: Item : `string`	output alignment in format ~~Item : `string`~~
`SequenceFileFormat string` Full Usage: `SequenceFileFormat string` Parameters: Item : `string`	assert is in format ~~: no autodetection~~ ~~Item : `string`~~
`SummaryToFile string` Full Usage: `SummaryToFile string` Parameters: Item : `string`	output alignment to file not stdout Alignment output formats include: Stockholm, Pfam, A2M, PSIBLAST Item : `string`
`Trim` Full Usage: `Trim`	trim terminal tails of nonaligned residues from alignment

Static member Description

Static member	Description
`HMMalignParams.makeCmd` Full Usage: `HMMalignParams.makeCmd` Returns: `HMMalignParams -> string list`	Returns: `HMMalignParams -> string list`
`HMMalignParams.makeCmdWith m` Full Usage: `HMMalignParams.makeCmdWith m` Parameters: m : `MountInfo` Returns: `HMMalignParams -> string list`	m : `MountInfo` Returns: `HMMalignParams -> string list`


                
                  
                    
                      HMMalignParams.makeCmd

Full Usage: HMMalignParams.makeCmd

Returns: HMMalignParams -> string list


                
                  
                    
                      HMMalignParams.makeCmdWith m

Full Usage: HMMalignParams.makeCmdWith m

Parameters:

m : MountInfo

Returns: HMMalignParams -> string list