mapobj-class {iGenomicViewer}R Documentation

mapobj 'mapping object' class

Description

The mapping object contains all mapping information which includes but is not limited to spotIDs, chromosome locations, and genomic locations. The mapping object will also have a band.info object associated with it in order to map spot.IDs to chromosome, arm, broad and fine bands.

mapobj object structure

band.info
a band.info object. see makeBandInfo
mapping.info
A data.frame of mapping information. The information included depends on the mapping file used and the user settins when creating the object with the mappingObj function. The data.frame must have Spot.ID, Chrom, as well as one of the options for genomic locations. see mappingObj for more details.
links
a data frame of web address information for the mapping. It should have the same row dimensions as the mapping.info data.frame.
images
a data frame of paths to images relating to the mapping. It should have the same row dimensions as the mapping.info data.frame.

Author(s)

Lori A. Shepherd

See Also

mappingObj


[Package iGenomicViewer version 2.4.6 Index]