grepAnnotation: grepAnnotation

In proteinProfiles: Protein Profiling

Description

Find protein group of interest based on pattern matching against the annotation data.

Usage

grepAnnotation(anno, pattern, column, ...)

Arguments

anno	Data frame with annotation to analyze. The row names have to match rownames in the matrix containing the protein abundance data. Different columns correspond to different annotation columns, e.g. from different sources.
pattern	Character string representing a (sub)string or regular expression matched against the annotation. For details, see ‘grep’.
column	Column of the annotation data ‘pattern’ is matched against.
...	Optional arguments, passed to the ‘grep’ function.

Value

Protein identifiers (rownames of ‘anno’) specifying the protein group of interest in the data set.

See Also

grep, filterRatios, proteinProfiles

Examples

data(ips_sample)

index_28S <- grepAnnotation(annotation, pattern="^28S",
column="Protein.Name")

index_ribosome <- grepAnnotation(annotation, "Ribosome", "KEGG")

proteinProfiles documentation built on Nov. 8, 2020, 7:46 p.m.