KaryotypeEntry

Full name SMRUCC.genomics.Visualize.Circos.Karyotype.KaryotypeEntry Assembly SMRUCC.genomics.Visualize.Circos.Core Members 7

The ideogram using karyotype file to define the genome skeleton information, which defines the name, size and color of chromosomes.

00 Remarks

A simple karyotype with 5 chromosomes:

 chr1 5Mb
 chr2 10Mb
 chr3 20Mb
 chr4 50Mb
 chr5 100Mb

The format Of this file Is

 chr - CHRNAME CHRLABEL START End COLOR

In data files, chromosomes are referred To by CHRNAME. On the image, they are labeled by CHRLABEL

Colors are taken from the spectral Brewer palette. To learn about Brewer palettes, see (www.colorbrewer.org)[http://www.colorbrewer.org]

01 Syntax

SMRUCC.genomics.Visualize.Circos.Karyotype.KaryotypeEntry

02 Methods

Name	Overloads	Summary
trimField	1	The karyotype file Is parsed by circos using the whitespace As the field delimiter, any whitespace inside the chromosome name/label will break the parser, so 在这里将其统一替换为下划线
ToString	1

03 Properties

Name	Overloads	Summary
chrName	1	Id
chrLabel	1	Display name title labels
start	1
end	1
color	1

04 Members

method trimField #

trimField(String)

The karyotype file Is parsed by circos using the whitespace As the field delimiter, any whitespace inside the chromosome name/label will break the parser, so 在这里将其统一替换为下划线

Parameters

Name	Type	Description
`text$`	`String`	-

property chrName #

chrName

property chrLabel #

chrLabel

Display name title labels

property start #

start

property end #

end

property color #

color

method ToString #

ToString()