draw_volcano: draw a volcano plot
In xjsun1221/tinyplanet: Easier GEO analysis and plots
Description
Usage
Arguments
Value
Author(s)
See Also
Examples
Description
print a volcano plot for Differential analysis result in data.frame fomat.
Usage
1
draw_volcano(deg, pvalue_cutoff = 0.05, logFC_cutoff = 1, pkg = 1, adjust = F)
Arguments
deg
a data.frame created by Differential analysis
pvalue_cutoff
Cutoff value of pvalue,0.05 by defult.
logFC_cutoff
Cutoff value of logFC,1 by defult.
pkg
a integer ,means which Differential analysis packages you used,we support three packages by now, 1,2,3,4 respectively means "DESeq2","edgeR","limma(voom)","limma"
adjust
a logical value, would you like to use adjusted pvalue to draw this plot,FAlSE by defult.
Value
a volcano plot according to logFC and P.value(or adjust P.value)
Author(s)
Xiaojie Sun
See Also
draw_heatmap;draw_pca;draw_venn
Examples
1
2
3
4
data("des")
head(deseq_data)
draw_volcano(deseq_data)
draw_volcano(deseq_data,pvalue_cutoff = 0.01,logFC_cutoff = 2)
xjsun1221/tinyplanet documentation built on April 2, 2020, 4:51 a.m.
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Description Usage Arguments Value Author(s) See Also Examples
Description
print a volcano plot for Differential analysis result in data.frame fomat.
Usage
1 | draw_volcano(deg, pvalue_cutoff = 0.05, logFC_cutoff = 1, pkg = 1, adjust = F)
|
Arguments
deg |
a data.frame created by Differential analysis |
pvalue_cutoff |
Cutoff value of pvalue,0.05 by defult. |
logFC_cutoff |
Cutoff value of logFC,1 by defult. |
pkg |
a integer ,means which Differential analysis packages you used,we support three packages by now, 1,2,3,4 respectively means "DESeq2","edgeR","limma(voom)","limma" |
adjust |
a logical value, would you like to use adjusted pvalue to draw this plot,FAlSE by defult. |
Value
a volcano plot according to logFC and P.value(or adjust P.value)
Author(s)
Xiaojie Sun
See Also
draw_heatmap;draw_pca;draw_venn
Examples
1 2 3 4 | data("des")
head(deseq_data)
draw_volcano(deseq_data)
draw_volcano(deseq_data,pvalue_cutoff = 0.01,logFC_cutoff = 2)
|
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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