Pfam: Pfam domains (Pfam).

In dcGOR: Analysis of Ontologies and Protein Domain Annotations

Description

An object of class "InfoDataFrame" that contains information on Pfam domains (Pfam). This data is prepared based on ftp://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/database_files/pfamA.txt.gz.

Usage

data(Pfam)

Value

an object of class InfoDataFrame. It has slots for data and dimLabels:

• data: a data.frame containing information about 14831 domains (in rows), with 3 columns ("id" for Pfam accession ID, and "level" always equals "Pfam", "description" for Pfam description)

• dimLabels: a character describing labels for rows and columns in data

References

Finn et al. (2014) The Pfam protein families database. Nucleic Acids Res, 42(Database issue):D222-D230.

See Also

InfoDataFrame-class

Examples

# load data
data(Pfam)
Pfam
# retrieve the dimension
dim(Pfam)
# retrieve names of columns
colNames(Pfam)
# retrieve the first 5 rows of data
Data(Pfam)[1:5,]

dcGOR documentation built on May 2, 2019, 6:14 p.m.