GotermAnalysisUseFeatureDefineDE: GotermAnalysisUseFeatureDefineDE
In aiminy/PathwaySJ: A R package for GO term enrichment analysis with the flexible bias factor adjustment
Description
Usage
Arguments
Examples
Description
GotermAnalysisUseFeatureDefineDE
Usage
1
2
3
4
GotermAnalysisUseFeatureDefineDE(re.gene.based, ad = "GL",
sub_feature = NULL, DE_define = c("Feature", "GeneWise", "rMAT",
"FeatureGeneWise", "FeaturerMAT", "GeneWiserMAT", "FeatureGeneWiseRMAT"),
gene_model, Output_file_dir)
Arguments
gene_model
Examples
1
2
3
4
5
6
7
Re.Go.adjusted.by.number.junction.2<-GotermAnalysis2GetAllGOTerms_AdjustedByNumOfJunctionWithinOneGene(
re.PJ.gene.based,ad="J","J",0.05,"Splice_junction_based")
data.pwf2.SJs<-plotPWF2(Re.Go.adjusted.by.number.junction.2[[2]],binsize=30,xlab = "Number of SJs(<binsize> gene bins)")
Re.Go.adjusted.by.exon.SJ<-GotermAnalysis2GetAllGOTerms_AdjustedByNumOfJunctionWithinOneGene(
re.PJ.gene.based,ad="exon_SJ",sub_feature=NULL,0.05,file_prefix="Exon_Splice_junction_based.xls",gene_model=gene.model)
aiminy/PathwaySJ documentation built on May 10, 2019, 7:38 a.m.
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.
Description Usage Arguments Examples
Description
GotermAnalysisUseFeatureDefineDE
Usage
1 2 3 4 | GotermAnalysisUseFeatureDefineDE(re.gene.based, ad = "GL",
sub_feature = NULL, DE_define = c("Feature", "GeneWise", "rMAT",
"FeatureGeneWise", "FeaturerMAT", "GeneWiserMAT", "FeatureGeneWiseRMAT"),
gene_model, Output_file_dir)
|
Arguments
gene_model |
Examples
1 2 3 4 5 6 7 | Re.Go.adjusted.by.number.junction.2<-GotermAnalysis2GetAllGOTerms_AdjustedByNumOfJunctionWithinOneGene(
re.PJ.gene.based,ad="J","J",0.05,"Splice_junction_based")
data.pwf2.SJs<-plotPWF2(Re.Go.adjusted.by.number.junction.2[[2]],binsize=30,xlab = "Number of SJs(<binsize> gene bins)")
Re.Go.adjusted.by.exon.SJ<-GotermAnalysis2GetAllGOTerms_AdjustedByNumOfJunctionWithinOneGene(
re.PJ.gene.based,ad="exon_SJ",sub_feature=NULL,0.05,file_prefix="Exon_Splice_junction_based.xls",gene_model=gene.model)
|
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.