ecoli.m52.genome {ecolitk} | R Documentation

## Escherichia coli data

### Description

Meta-data related to Escherichia coli

### Usage

    data(ecoli.m52.genome)
    data(ecoligenomeCHRLOC)
    data(ecoligenomeSYMBOL2AFFY)
    data(ecoligenomeSYMBOL)
    data(ecoligenomeSTRAND)
    data(ecoligenome.operon)
    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)

[Package ecolitk version 1.8.0 Index]