windowGOvisualize: windowGOvisualize
In zji90/SEPA: SEPA
Description
Usage
Arguments
Details
Value
Author(s)
Examples
Description
Visualize results of GO analysis with moving window for transition patterns
Usage
1
windowGOvisualize(GOres, GOTerm = NULL, topterm = 2, mode = "Heatmap")
Arguments
GOres
The direct output of windowGOanalysis function.
GOTerm
The name of GO term to be displayed. If NULL, top GO terms will be displayed instead
topterm
The number of top GO terms to be displayed. This argument only works when GOTerm is NULL.
mode
To plot in heatmap or line graph. Either "Heatmap" or "Line".
Details
This function is specifically designed to visualize the results obtained from windowGOanalysis function. Users can choose to visualize specific GO terms or
top GO terms in each time window
Value
A ggplot2 object.
Author(s)
Zhicheng Ji, Hongkai Ji <zji4@zji4.edu>
Examples
1
2
3
4
library(topGO)
data(HSMMdata)
pattern <- pseudotimepattern(HSMMdata,pseudotime)
windowGOvisualize(windowGOanalysis(pattern,type="constant_up"))
zji90/SEPA documentation built on May 5, 2019, 1:36 p.m.
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Description Usage Arguments Details Value Author(s) Examples
Description
Visualize results of GO analysis with moving window for transition patterns
Usage
1 | windowGOvisualize(GOres, GOTerm = NULL, topterm = 2, mode = "Heatmap")
|
Arguments
GOres |
The direct output of windowGOanalysis function. |
GOTerm |
The name of GO term to be displayed. If NULL, top GO terms will be displayed instead |
topterm |
The number of top GO terms to be displayed. This argument only works when GOTerm is NULL. |
mode |
To plot in heatmap or line graph. Either "Heatmap" or "Line". |
Details
This function is specifically designed to visualize the results obtained from windowGOanalysis function. Users can choose to visualize specific GO terms or top GO terms in each time window
Value
A ggplot2 object.
Author(s)
Zhicheng Ji, Hongkai Ji <zji4@zji4.edu>
Examples
1 2 3 4 | library(topGO)
data(HSMMdata)
pattern <- pseudotimepattern(HSMMdata,pseudotime)
windowGOvisualize(windowGOanalysis(pattern,type="constant_up"))
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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