ecoli.m52.genome {ecolitk}R Documentation

Escherichia coli data

Description

Meta-data related to Escherichia coli

Usage

data(ecoli.m52.genome)
data(ecoligenomeCHRLOC)
data(ecoligenomeSYMBOL2AFFFY)
data(ecoligenomeSYMBOL)
data(ecoligenomeSTRAND)
ecoli.len

Format

The format for ecoli.m52.genome is character with genome sequence. The format for ecoligenomeCHRLOC is an environment (as a hash table). Each key is an Affyemtrix probe set ID, and each value is vector of two integers (begining and end - see the details below) The format for ecoligenomeSYMBOL2AFFFY is an environment (as a hash table). Each key is a gene symbol name. The format for ecoligenomeSYMBOL is an environment (as a hash table). Each key is an Affymetrix probe set id ecoli.len is a variable containing the size of the genome in ecoli.m52.genome.

Details

The environments ecoligenomeSYMBOL2AFFFY and ecoligenomeSYMBOL are like the ones in the data packages built by annBuilder.

The environment ecoligenomeCHRLOC differs: two integers are associated with each key, one corresponds to the begining of the segment the other to the end.

The environment ecoligenomeSTRAND returns a logical. TRUE means that the orientation is `+', FALSE means that the orientation is '-' (and NA is used when irrelevant for the key).

Source

http://www.genome.wisc.edu/sequencing/k12.htm and http://www.biostat.harvard.edu/complab/dchip/info_file.htm

Examples

data(ecoli.m52.genome)


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