Package index

All functions

createEnrichMap()

Using functional enrichment results in gprofiler2 format to create an enrichment map

createEnrichMapAsIgraph()

Using functional enrichment results in gprofiler2 format to create an enrichment map in an igraph format

createEnrichMapMultiBasic()

Using functional enrichment results in gprofiler2 format to create an enrichment map with multiple groups from different enrichment analyses

createEnrichMapMultiBasicAsIgraph()

Using functional enrichment results in gprofiler2 format to create an enrichment map with multiple groups from different enrichment analyses as an igraph

createEnrichMapMultiComplex()

Using functional enrichment results in gprofiler2 format to create an enrichment map with multiple groups from same or different enrichment analyses

createEnrichMapMultiComplexAsIgraph()

Using functional enrichment results in gprofiler2 format to create an enrichment map with multiple groups from same or different enrichment analyses in an igraph format

createNetwork()

Using functional enrichment results from gprofiler2 to create a Cytoscape network

demoGOST

The result of a functional enrichment analysis done with gprofiler2 (https://cran.r-project.org/web/packages/gprofiler2/vignettes/gprofiler2.html).

enrichViewNet-package enrichViewNet

From functional enrichment results to biological networks

parentalNapaVsDMSODEG

The result of a differential expression analysis done between napabucasin treated and DMSO control parental MiaPaCa2 cells. The cells were treated for 2 hours with 0.5 uM napabucasin. The protocol to generate the RNA-seq is described in Froeling F.E.M. et al 2019.

parentalNapaVsDMSOEnrichment

The result of an enrichment analysis has been done using the significantly differentially expressed genes between napabucasin treated and DMSO control parental MiaPaCa2 cells. The cells were treated for 2 hour with 0.5 uM napabucasin. The protocol to generate the RNA-seq is described in Froeling F.E.M. et al 2019.

rosaNapaVsDMSODEG

The result of a differential expression analysis done between napabucasin treated and DMSO control MiaPaCa2 cells stably expressing the Rosa26 control vector. The cells were treated for 2 hours with 0.5 uM napabucasin. The protocol to generate the RNA-seq is described in Froeling F.E.M. et al 2019.

rosaNapaVsDMSOEnrichment

The result of an enrichment analysis that has been done using the significantly differentially expressed genes between napabucasin treated and DMSO control MiaPaCa2 cells stably expressing the Rosa26 control vector. The cells were treated for 2 hour with 0.5 uM napabucasin. The protocol to generate the RNA-seq is described in Froeling F.E.M. et al 2019.

validateCreateEnrichMapMultiComplexAsIgraphArg()

Validate arguments passed to validateCreateEnrichMapMultiComplex() function