Class sage.library

Description

The SAGE library class contains all the data and annotation for a SAGE library. It can contain two data.frames.

Usage

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read.sage.library(file)
write.sage.library(x, file=paste(x$libname, "sage", sep="."),
                   what="complete") 

Arguments

x

A sage library object

file

File name to read or write to

what

"complete", read complete librarary tags and sequences; "tags", read only tags and counts

Details

SAGE library objects consists of one or two data.frames. The data.frame "tags" contains all the unique tags in the library and its counts. The data.frame "seqs" contains all the individual tag sequences and associated quality values. read.sage.library and write.sage.library are utility functions to read and write SAGE libraries.

Author(s)

Tim Beissbarth

References

http://tagcalling.mbgproject.org

See Also

extract.lib

Examples

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library(sagenhaft)
E15postHFI <- read.sage.library(system.file("extdata", "E15postHFI.sage",
                                package="sagenhaft")) 
E15postHFI