Files in PloGO2

Plot Gene Ontology and KEGG pathway Annotation and Abundance

README.md

NAMESPACE

DESCRIPTION

build/vignette.rds

R/genWegoFile.R R/GOGraphWrapper.R

R/sysdata.rda

R/processAnnotations.R R/countAndAbundance.R R/GOParent.R R/Children.R R/processGoFile.R R/printSummary.R R/GOTermList.R R/processAnnotFile.R R/aggregateAbundance.R R/annotationPlot.R R/getGoID.R R/tabulateAnnot.R R/printOpenxlsxStyle.R R/writeGOannot.R R/printSimpleOpenxlsxStyle.R R/genAnnotationFiles.R R/getUniprotBatch.R R/extractPairs.R R/plotAbundance.R R/processPathFile.R R/read.annot.file.R R/processPlainAnnotation.R R/plotAbundanceBar.R R/compareAnnot.R R/ExcelToPloPathway.R R/abundancePlot.R R/PloGO.R R/plotMat.R R/inferGroup.R R/PloPathway.R R/ExcelToPloGO.R R/writeAnnotation.R R/inGraph.R

vignettes/Abundance_barplot.png

vignettes/Annotation1Perc.pdf

vignettes/PloGO2_vignette.Rnw

vignettes/PloGO2_with_WGNCA_vignette.Rnw

vignettes/File1.png

vignettes/Thumbs.db

vignettes/REFERENCES.bib

vignettes/plogo2.png

man/genWegoFile.Rd man/PloPathway.Rd man/annotationPlot.Rd man/compareAnnot.Rd man/processAnnotation.Rd man/PloGO.Rd man/processGoFile.Rd man/genAnnotationFiles.Rd man/ExcelToPloPathway.Rd man/writeAnnotation.Rd man/read.annot.file.Rd man/processPathFile.Rd man/GOTermList.Rd man/ExcelToPloGO.Rd man/plotAbundanceBar.Rd man/getGoID.Rd man/abundancePlot.Rd man/printSummary.Rd inst/doc/PloGO2_vignette.R

inst/doc/PloGO2_vignette.Rnw

inst/doc/PloGO2_with_WGNCA_vignette.pdf inst/doc/PloGO2_with_WGNCA_vignette.R

inst/doc/PloGO2_with_WGNCA_vignette.Rnw

inst/doc/PloGO2_vignette.pdf inst/script/plogo2_script.R inst/script/WGCNA_proteomics.R

inst/files/rice.csv

inst/files/NSAFtest.csv

inst/files/ResultsWGCNA_Input4PloGO2.xlsx

inst/files/NSAFDesc.csv

inst/files/GOfiles.zip

inst/files/Abundance_data.csv

inst/files/group_rice.csv

inst/files/keggPathway.csv

inst/files/pathwayDB.csv

inst/files/PWFiles.zip

inst/files/Control.txt

inst/files/11111.txt

inst/files/GODefault.txt

inst/files/mart_export.txt

inst/files/GOListDrought.txt

inst/files/01111.txt

inst/files/NSAF.csv

inst/files/dat_WGCNA_input.csv

inst/files/goRetOutput.txt

inst/files/00100.txt

inst/files/10000.txt

inst/files/PWFiles/black.txt

inst/files/PWFiles/turquoise.txt

inst/files/PWFiles/green.txt

inst/files/PWFiles/red.txt

inst/files/PWFiles/brown.txt

inst/files/PWFiles/AllData.txt

inst/files/PWFiles/yellow.txt

inst/files/PWFiles/blue.txt

PloGO2 documentation built on Nov. 8, 2020, 5:40 p.m.