SearchHit-class: Class to contain individual search hit identification data.

In lgatto/RpepXML: R interface to the pepXML standard

Description

Class implementing the search_hit element of the pepXML standard.

Slots

hitRank:

Object of class "integer", indicating the hit rank of the current search hit.

proteins:

Object of class "character", documenting the protein(s) in which the current peptide hit is found.

pepSequence:

Object of class "character", the sequence of the peptide.

modifications:

Object of class "data.frame", documenting the modifications identified in the current peptide.

scores:

Object of class (names) "numeric", documenting the different search scores values.

.__classVersion__:

Object of class "Versions", documenting the class version.

Extends

Class "Versioned", directly.

Methods

filterHits

signature(object = "SearchHit"): see filterHits-methods.

hitRank<-

signature(object = "SearchHit", value = "integer"): see hitRank-methods.

hitRank

signature(object = "SearchHit"): see hitRank-methods.

ionScore

signature(object = "SearchHit"): see ionScore-methods.

modifications<-

signature(object = "SearchHit", value = "data.frame"): see modifications-methods.

modifications

signature(object = "SearchHit"): see modifications-methods.

nProteins

signature(object = "SearchHit"): see nProteins-methods.

pepSequence<-

signature(object = "SearchHit", value = "character"): see pepSequence-methods.

pepSequence

signature(object = "SearchHit"): see pepSequence-methods.

proteins<-

signature(object = "SearchHit", value = "character"): see proteins-methods.

proteins

signature(object = "SearchHit"): see proteins-methods.

scores<-

signature(object = "SearchHit", value = "numeric"): see scores-methods.

scores

signature(object = "SearchHit"): see scores-methods.

show

signature(object = "SearchHit"): see show-methods.

Author(s)

Laurent Gatt

See Also

"MSMSpepXML", "SpectrumQuery", "SearchResult"

Examples

showClass("SearchHit")

lgatto/RpepXML documentation built on May 21, 2019, 6:04 a.m.