GOsummaries: Word cloud summaries of GO enrichment analysis

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A package to visualise Gene Ontology (GO) enrichment analysis results on gene lists arising from different analyses such clustering or PCA. The significant GO categories are visualised as word clouds that can be combined with different plots summarising the underlying data.

Author
Raivo Kolde <raivo.kolde@eesti.ee>
Date of publication
None
Maintainer
Raivo Kolde <raivo.kolde@eesti.ee>
License
GPL (>= 2)
Version
2.8.0
URLs

View on Bioconductor

Man pages

add_expression.gosummaries
Add expression data to gosummaries object
add_to_slot.gosummaries
Functions for working with gosummaries object
customize
Customization function for panel
gosummaries
Constructor for gosummaries object
gosummaries.kmeans
Prepare gosummaries object based on k-means results
gosummaries.MArrayLM
Prepare gosummaries object based on limma results
gosummaries.matrix
Prepare gosummaries object based on Multi Dimensional Scaling...
GOsummaries-package
Word cloud summaries of GO enrichment analysis
gosummaries.prcomp
Prepare gosummaries object based on PCA results
metabolomic_example
Example metabolomic dataset
metagenomic_example
Example metagenomic dataset
panel_boxplot
Panel drawing functions
plot.gosummaries
Plot the GOsummaries figure
plotWordcloud
Plot a wordcloud given words and frequencies
tissue_example
Example gene expression dataset

Files in this package

GOsummaries/DESCRIPTION
GOsummaries/NAMESPACE
GOsummaries/NEWS
GOsummaries/R
GOsummaries/R/GOsummaries-package.R
GOsummaries/R/GOsummaries.R
GOsummaries/R/exampleDatasets.R
GOsummaries/R/wordcloud.R
GOsummaries/README.md
GOsummaries/build
GOsummaries/build/vignette.rds
GOsummaries/data
GOsummaries/data/datalist
GOsummaries/data/gs_kmeans.rda
GOsummaries/data/gs_limma.rda
GOsummaries/data/gs_limma_exp.rda
GOsummaries/data/gs_pca.rda
GOsummaries/data/metabolomic_example.RData
GOsummaries/data/metagenomic_example.RData
GOsummaries/data/tissue_example.RData
GOsummaries/inst
GOsummaries/inst/CITATION
GOsummaries/inst/doc
GOsummaries/inst/doc/GOsummaries-basics.R
GOsummaries/inst/doc/GOsummaries-basics.Rnw
GOsummaries/inst/doc/GOsummaries-basics.pdf
GOsummaries/man
GOsummaries/man/GOsummaries-package.Rd
GOsummaries/man/add_expression.gosummaries.Rd
GOsummaries/man/add_to_slot.gosummaries.Rd
GOsummaries/man/customize.Rd
GOsummaries/man/gosummaries.MArrayLM.Rd
GOsummaries/man/gosummaries.Rd
GOsummaries/man/gosummaries.kmeans.Rd
GOsummaries/man/gosummaries.matrix.Rd
GOsummaries/man/gosummaries.prcomp.Rd
GOsummaries/man/metabolomic_example.Rd
GOsummaries/man/metagenomic_example.Rd
GOsummaries/man/panel_boxplot.Rd
GOsummaries/man/plot.gosummaries.Rd
GOsummaries/man/plotWordcloud.Rd
GOsummaries/man/tissue_example.Rd
GOsummaries/src
GOsummaries/src/Makevars
GOsummaries/src/Makevars.win
GOsummaries/src/findCoordinates.cpp
GOsummaries/vignettes
GOsummaries/vignettes/GOsummaries-basics.Rnw
GOsummaries/vignettes/GS.pdf