goldi: Gene Ontology Label Discernment and Identification

A tool for identifying multiple word key terms in free text with application to Gene Ontology labels.

Author
Christopher B. Cole [aut, cre, cph], Sejal Patel [ctb], Jo Knight [ctb]
Date of publication
2016-10-17 00:58:22
Maintainer
Christopher B. Cole <chris.c.1221@gmail.com>
License
MIT + file LICENSE
Version
1.0.0
URLs

View on CRAN

Man pages

enrichment
Calculate enriched terms in a target set
goldi
Identify terms present in document.
hgt
Calculate the hypergeometric tail
make.lim
Construct Constraint Limits for Fuzzy Identification
make.syn
Construct synonym matrix for internal or external use
match
Match terms
MF_terms
Molecular Function terms A dataset of molecular function...
replaceExpressions
Internal expression replacement with grep
replaceExpressions.character
Internal expression replacement with grep
replaceExpressions.PlainTextDocument
Internal expression replacement with grep
TDM.go.df
Term document matrix of Gene Ontology Molecular Function...

Files in this package

goldi
goldi/inst
goldi/inst/pdf2txt.py
goldi/inst/extdata
goldi/inst/extdata/MF_terms
goldi/inst/doc
goldi/inst/doc/quick-start.html
goldi/inst/doc/overexpression-analysis.R
goldi/inst/doc/quick-start.R
goldi/inst/doc/overexpression-analysis.Rmd
goldi/inst/doc/quick-start.Rmd
goldi/inst/doc/overexpression-analysis.html
goldi/tests
goldi/tests/testthat.R
goldi/tests/testthat
goldi/tests/testthat/test-goldi.R
goldi/src
goldi/src/Makevars
goldi/src/match.cpp
goldi/src/Makevars.win
goldi/src/RcppExports.cpp
goldi/NAMESPACE
goldi/data
goldi/data/MF_terms.rda
goldi/data/TDM.go.df.rda
goldi/R
goldi/R/replaceExpressions.character.R
goldi/R/replaceExpressions.PlainTextDocument.R
goldi/R/onAttach.R
goldi/R/hgt.R
goldi/R/replaceExpressions.R
goldi/R/makesyn.R
goldi/R/sysdata.rda
goldi/R/enrichment.R
goldi/R/TDM.go.df.R
goldi/R/RcppExports.R
goldi/R/MF_terms.R
goldi/R/goldi.R
goldi/R/makelim.R
goldi/vignettes
goldi/vignettes/overexpression-analysis.Rmd
goldi/vignettes/quick-start.Rmd
goldi/README.md
goldi/MD5
goldi/build
goldi/build/vignette.rds
goldi/DESCRIPTION
goldi/man
goldi/man/make.lim.Rd
goldi/man/match.Rd
goldi/man/enrichment.Rd
goldi/man/TDM.go.df.Rd
goldi/man/goldi.Rd
goldi/man/replaceExpressions.character.Rd
goldi/man/replaceExpressions.Rd
goldi/man/replaceExpressions.PlainTextDocument.Rd
goldi/man/make.syn.Rd
goldi/man/hgt.Rd
goldi/man/MF_terms.Rd
goldi/LICENSE