| Bioinformatics Toolbox™ |   |
cytobandread - Read cytogenetic banding information
Syntax
CytoStruct = cytobandread(File)
Arguments
| File | String specifying a file containing cytogenetic
G-banding data, such as an NCBI ideogram text file or a UCSC Genome
Browser cytoband text file. |
Return Values
| CytoStruct | Structure containing cytogenetic G-banding
data in the following fields:ChromLabels BandStartBPs BandEndBPs BandLabels GieStains
|
Description
CytoStruct = cytobandread(File) reads File, which is a string specifying a file containing cytogenetic G-banding
data, and returns CytoStruct, which is
a structure containing the following fields.
| Field | Description |
|---|
| ChromLabels | Cell array containing the chromosome label (number or letter)
on which each band is located. |
| BandStartBPs | Column vector containing the number of the base pair at the
start of each band. |
| BandEndBPs | Column vector containing the number of the base pair at the
end of each band. |
| BandLabels | Cell array containing the FISH label of each band, for example, p32.3. |
| GieStains | Cell array containing the Giemsa staining result for each band.
Possible stain results depend on the species. For example, for Homo sapiens, the possibilities are:gneg gpos25 gpos50 gpos75 gpos100 acen stalk gvar
|
Examples
Read the cytogenetic banding information for Homo
sapiens into a structure.
hs_cytobands = cytobandread('hs_cytoBand.txt')
hs_cytobands =
ChromLabels: {862x1 cell}
BandStartBPs: [862x1 int32]
BandEndBPs: [862x1 int32]
BandLabels: {862x1 cell}
GieStains: {862x1 cell}See Also
Bioinformatics Toolbox™ function: chromosomeplot
| crossvalind | | dayhoff | |