Description

An object of class "InfoDataFrame" that contains information on RNA families (Rfam). This data is prepared based on ftp://anonymous@ftp.sanger.ac.uk/pub/databases/Rfam/11.0/database_files/rfam.txt.gz.

Usage

data(Rfam)

Value

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

• data: a data.frame containing information about 2208 RNA families (in rows), with 3 columns ("id" for Rfam accession ID, and "level" always equals "Rfam", "description" for Rfam description)
• dimLabels: a character describing labels for rows and columns in data

References

Gardner et al. (2011) Rfam: Wikipedia, clans and the "decimal" release. Nucleic Acids Res, 39(Database issue):D141-D145.

Examples

# load data
data(Rfam)
Rfam

An object of S4 class 'InfoDataFrame'
  rowNames: RF00001 RF00002 RF00003 ... RF02277 RF02278 (2208 total)
  colNames: id level description

# retrieve the dimension
dim(Rfam)

[1] 2208    3

# retrieve names of columns
colNames(Rfam)

[1] "id"          "level"       "description"

# retrieve the first 5 rows of data
Data(Rfam)[1:5,]

             id level         description
RF00001 RF00001  Rfam    5S ribosomal RNA
RF00002 RF00002  Rfam  5.8S ribosomal RNA
RF00003 RF00003  Rfam U1 spliceosomal RNA
RF00004 RF00004  Rfam U2 spliceosomal RNA
RF00005 RF00005  Rfam                tRNA

See also